{"$update": {"2614": {"$update": {"ARO_description": "mphE is a macrolide phosphotransferase and resistance gene identified on a plasmid, pRSB105", "model_sequences": {"$update": {"sequence": {"5079": {"dna_sequence": {"partial": "0", "sequence": "ATGACAATTCAAGATATTCAATCACTTGCTGAAGCACACGGCTTGTTGCTTACGGACAAAATGAATTTCAATGAAATGGGCATTGATTTTAAGGTCGTTTTTGCTCTTGATACAAAGGGGCAACAATGGTTGCTGCGTATTCCTCGTCGTGATGGCATGAGGGAACAAATCAAGAAAGAAAAACGCATTTTAGAATTGGTAAAAAAACATCTTTCTGTAGAGGTTCCTGATTGGAGAATTTCATCTACAGAATTAGTGGCTTATCCCATACTTAAAGATAATCCTGTTTTAAATTTGGATGCTGAAACCTATGAAATAATTTGGAATATGGACAAAGATAGCCCGAAATACATAACATCTTTGGCAAAAACCTTATTTGAAATCCATAGTATTCCTGAAAAAGAAGTTCGGGAAAATGATTTGAAAATTATGAAACCTTCAGATTTAAGACCTGAAATAGCAAACAATTTGCAGTTAGTAAAATCTGAAATTGGTATAAGTGAGCAATTGGAAACCCGCTACAGAAAATGGTTGGATAATGATGTTCTATGGGCAGATTTCACCCAATTTATACATGGCGATTTATATGCTGGGCATGTACTAGCTTCAAAGGATGGAGCTGTTTCAGGCGTTATTGATTGGTCAACAGCCCATATAGATGACCCAGCGATTGATTTTGCTGGGCATGTAACTTTGTTTGGAGAAGAAAGCCTCAAAACTCTAATCATCGAGTATGAAAAACTAGGGGGTAAAGTTTGGAATAAACTATATGAACAGACTTTAGAAAGAGCAGCGGCCTCTCCTTTGATGTATGGTTTATTTGCCTTAGAAACTCAAAATGAAAGCCTTATCGTTGGAGCAAAAGCTCAGTTGGGAGTTATATAA", "fmax": "13757", "accession": "DQ839391.1", "fmin": "12872", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "uncultured bacterium", "NCBI_taxonomy_id": "77133", "NCBI_taxonomy_cvterm_id": "36791"}, "protein_sequence": {"accession": "ABI20451.1", "sequence": "MTIQDIQSLAEAHGLLLTDKMNFNEMGIDFKVVFALDTKGQQWLLRIPRRDGMREQIKKEKRILELVKKHLSVEVPDWRISSTELVAYPILKDNPVLNLDAETYEIIWNMDKDSPKYITSLAKTLFEIHSIPEKEVRENDLKIMKPSDLRPEIANNLQLVKSEIGISEQLETRYRKWLDNDVLWADFTQFIHGDLYAGHVLASKDGAVSGVIDWSTAHIDDPAIDFAGHVTLFGEESLKTLIIEYEKLGGKVWNKLYEQTLERAAASPLMYGLFALETQNESLIVGAKAQLGVI"}}}}}, "model_name": "mphE", "ARO_name": "mphE"}}, "1240": {"$update": {"ARO_description": "mphL is a chromosomally-encoded macrolide phosphotransferases that inactivate 14- and 15-membered macrolides such as erythromycin, clarithromycin, azithromycin.", "model_sequences": {"$update": {"sequence": {"$insert": {"5082": {"dna_sequence": {"partial": "0", "sequence": "ATGAATACACTTAAAGTGAAACAATTAGCAAATAAGGAAGGACTAAATATATTAGAAGATTCAATAGAAATCAATGAATCTGGCGTTGACTTTCAAGTAGCACACGTCAAAGAACAAAACGGGGATAAATGGATACTACGAATTCCTCGTAGACGAGAATCTATGAGACATGCTCTACGTGAAAAAGAAGCATTAGAAATCATGAAAAAACATGCAGAATTCCAAGTTCCTGATTGGTCTATATTTTCTGAGGAACTAATTGCTTATAAACAACTAAGTGGCGTTCCTGCCGCTACTATCGATATAGAACAACAAGGTTATATATGGACCTTTAACGAAAAGGATGTACCAACTGAATACTATATTTCCTTAGGAAAAGTTTTAGCGAATTTACACTCATTACCTCAGCAAAAATTTAATAGTATAGGTGTTGAAATTCTTACTGCTAATGAATTAAGAACTTCTATGAAACAAAGGATGAATCGAGTGAAGGAACAATACCACATCAATCAAAACTTATGGGATCGTTGGCAAGCATGGCTAGCTGAAGACTCTTTTTGGCCATCTCACGTAGGAGTAAAGCATGGGGATATCCATCCAGGTCATATCCTGATTGATAATAAAAATAAGGTAACTGGCTTAATCGATTGGACAGAAGTAGGGATAGGTGATGTATCTATAGATTTCACATCGCATTATCTACTCTTTGGAAAGGATGGACTAACAAAGTTAATTCACTCTTATGATAACGCTGGCGGTAAAACTTGGTCAAGAATGGATGAACATATTATCGAACTTCTAACAACGAGTAGTATTACTGTTGCTGAATACGCTCAAGTGTCAGGTTTGAAAGACATGCATGAAATAGCTGTACACATGCTATCAACTGAAAGTTAA", "fmax": "4033305", "accession": "NZ_JH791865.1", "fmin": "4032408", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus cereus", "NCBI_taxonomy_id": "1396", "NCBI_taxonomy_cvterm_id": "36751"}, "protein_sequence": {"accession": "WP_001094257.1", "sequence": "MNTLKVKQLANKEGLNILEDSIEINESGVDFQVAHVKEQNGDKWILRIPRRRESMRHALREKEALEIMKKHAEFQVPDWSIFSEELIAYKQLSGVPAATIDIEQQGYIWTFNEKDVPTEYYISLGKVLANLHSLPQQKFNSIGVEILTANELRTSMKQRMNRVKEQYHINQNLWDRWQAWLAEDSFWPSHVGVKHGDIHPGHILIDNKNKVTGLIDWTEVGIGDVSIDFTSHYLLFGKDGLTKLIHSYDNAGGKTWSRMDEHIIELLTTSSITVAEYAQVSGLKDMHEIAVHMLSTES"}}}}}}, "model_name": "mphL", "ARO_name": "mphL"}}, "2081": {"$update": {"model_sequences": {"$update": {"sequence": {"4836": {"dna_sequence": {"partial": "0", "sequence": "ATGCTGATTCAGAAAATAAAAACCTACAAGTGGCAGGCCCTGGCTTCGCTCCTGATGACAGGCTTGATGGTTGCTAGTTCACTTCTGCAACCGCGTTATCTGCAGGAAGTCTTAGGCGCCCTCCTTACTGGGAAATATGAAGCTATTTATAGTATCGGGGCTTGGTTGATTGGTGTGGCCGTAGTCGGTCTAGTTGCTGGTGGACTCAATGTTGTCCTCGCAGCCTATATTGCCCAAGGAGTTTCATCCGACCTTCGGGAGGATGCCTTCCGTAAAATTCAAACCTTTTCTTATGCTGATATTGAACAATTTAATGCGGGAAATCTAGTCGTTCGAATGACAAATGATATCAACCAGATTCAGAACGTTGTCATGATGACCTTCCAAATTCTTTTCAGACTTCCCCTCTTGTTCATCGGTTCGTTTATCCTAGCGGTTCAAACCTTACCTTCTCTGTGGTGGGTGATTGTTCTCATGGTAGTCTTGATTTTTGGTTTGACTGCTGTCATGATGGGAATGATGGGGCCTCGTTTTGCCAAGTTTCAAACCCTTCTTGAGCGCATCAATGCCATTGCCAAGGAAAATTTACGTGGCGTTCGTGTGGTCAAGTCCTTTGTCCAAGACAAAGAGCAATTTGCTAAGTTTACAGAGGTCTCAGACGAGCTTTTTGGTCAAAACCTTTACATTGGTTATGCCTTTTCAGTAGTGGAACCCTTTATGATGTTGGTTGGTTACGGGGCGGTCTTCCTCTCTATTTGGCTGGTCGCGGGAATGGTTCAGTCGGATCCGTCTGTTGTTGGTTCCATCGCTTCTTTTGTTAATTACCTAAGCCAGATTATCTTTACCATTGTTATGGTTGGATTTTTGGGAAATTCTGTCAGCCGTGCCATGATTTCCATGCGTCGTATTCGAGAAATTCTTGACGCAGAGCCAGCTATGACCTTCAAGGATATCCCAGATGAAGAGTTGGTTGGAAGTCTTAGCTTTGAAAATGTGACCTTTACCTATCCAATGGACAAGGAACCGATGCTGAAAGATGTGAGCTTTACTATTGAACCTGGTCAAATGGTTGGTGTAGTTGGAGCGACTGGTGCAGGAAAGTCAACCTTGGCTCAATTGATTCCACGTCTCTTTGATCCACAGGACGGGGCCATTAAAATCGGTGGCAAGGATATTCGAGAAGTGAGTGAAGGAACCCTGCGTAAAACAGTTTCCATCGTTCTCCAACGTGCCATTCTTTTTAGTGGAACGATTGCAGATAACTTGAGACAGGGGAAGGGGAATGCTACTCTATTTGAAATGGAGCGCGCAGCCAATATTGCCCAGGCTAGTGAATTCATTCATCGTATGGAGAAAACCTTTGAAAGTCCAGTTGAAGAACGGGGAACCAATTTCTCTGGTGGACAAAAACAAAGGATGTCGATTGCGCGTGGGATTGTCAGCAATCCACGTATTCTGATTTTTGATGATTCGACCTCAGCCTTGGATGCCAAATCAGAGCGCTTGGTGCAAGAAGCTTTGAATAAGGACTTGAAGGGGACGACAACCATTATTATTGCTCAAAAAATTAGCTCGGTTGTCCATGCAGACAAGATCTTGGTTCTAAATCAAGGACGATTGATTGGTCAAGGTACGCATGCAGACTTGGTTGCCAACAATGCCGTTTACCGTGAAATCTATGAAACACAGAAATGA", "fmax": "10523", "accession": "NZ_PHTS01000131.1", "fmin": "8828", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Streptococcus pneumoniae", "NCBI_taxonomy_id": "1313", "NCBI_taxonomy_cvterm_id": "35917"}, "protein_sequence": {"accession": "WP_125169584.1", "sequence": "MLIQKIKTYKWQALASLLMTGLMVASSLLQPRYLQEVLGALLTGKYEAIYSIGAWLIGVAVVGLVAGGLNVVLAAYIAQGVSSDLREDAFRKIQTFSYADIEQFNAGNLVVRMTNDINQIQNVVMMTFQILFRLPLLFIGSFILAVQTLPSLWWVIVLMVVLIFGLTAVMMGMMGPRFAKFQTLLERINAIAKENLRGVRVVKSFVQDKEQFAKFTEVSDELFGQNLYIGYAFSVVEPFMMLVGYGAVFLSIWLVAGMVQSDPSVVGSIASFVNYLSQIIFTIVMVGFLGNSVSRAMISMRRIREILDAEPAMTFKDIPDEELVGSLSFENVTFTYPMDKEPMLKDVSFTIEPGQMVGVVGATGAGKSTLAQLIPRLFDPQDGAIKIGGKDIREVSEGTLRKTVSIVLQRAILFSGTIADNLRQGKGNATLFEMERAANIAQASEFIHRMEKTFESPVEERGTNFSGGQKQRMSIARGIVSNPRILIFDDSTSALDAKSERLVQEALNKDLKGTTTIIIAQKISSVVHADKILVLNQGRLIGQGTHADLVANNAVYREIYETQK"}}}}}}}, "2345": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2344": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2347": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2346": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2341": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "851": {"$update": {"model_param": {"$update": {"snp": {"$update": {"param_value": {"$insert": {"8569": "W68C"}}, "clinical": {"$insert": {"8569": "W68C"}}}}}}}}, "2343": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "473": {"$update": {"ARO_description": "mphF is a macrolide phosphotransferase and resistance gene identified on the IncP plasmid pRSB111", "model_sequences": {"$update": {"sequence": {"5078": {"dna_sequence": {"partial": "0", "sequence": "ATGCTGCACGACACGGACCGAATACTGAAGCTGGCCAGGGAGGCAGGCTTGGAGCTTGCGCCCGGTTCCCTTAGGCTCAACGAAATGGGCCTCGATTTCCAAGTTGCTTTCGGCAGGGATGGGGACGCTGTAGAGTGGGTTTTGCGGATGCCGCGCCGGACGGACGTGGCATGTGCGGCAGTCAAGGAAGCGAAGATACTCGACTATTTCCGCAGTCGGCTGCCAGTCGCTGTGCCGGACTGGAAGGTCTTTAGCGATGATCTCATCGCCTACCCCTCCCTGCCGGGCAATCCGGGGCTGACATTTGACGCCTCGACCTATGAGACGACCTGGCACTTTGACCAGAATTCTCCGGTCTATGTTGAAACGCTGGGCGCGGCGCTCGCGCAATTGCATGGGCTCGACACCGACGATGCAATTAGCGCGGGGCTAAGCAATCTCAGTATCGATGCCGTACGAGAGAACTGGACGCGCGATCTCGAAACTGTCGAGAAAAGCTTTGAGGTACCGGCAGCAAGACTTGCCCTCTGGCGCGCTTGGCTTGCTGACTTGTCATTCTGGCCTACCCATGCCGCCTCAGTGCACGGCGATCTTTATGTCGGGCATGTCATGGTCAAATCGGACGGTACTGTCTGCGGGATAATCGACTGGAGTGAGGCTCATATCGGCGATCCTGGAATCGATCTGGCTGGACATCTCAAGGTGTTCGGCGAAGCTAGCCTGCGCGACCTCCTCGGTCACTACGAGGCGGCGGGGGGACAAACCTGGCCGCGTATAGTTGAGCATTGCAAGATGCTGCAGAGCGCCGAGGGCATCCGATATGCTATGTTCGCCCTTAAGACGGGCAGCGCAGAGCATCTGGAGGGTGCCCAGGGGCTTTTGTCGGCGCCAGGGATTTGA", "fmax": "5086", "accession": "AM260957.1", "fmin": "4186", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "uncultured bacterium", "NCBI_taxonomy_id": "77133", "NCBI_taxonomy_cvterm_id": "36791"}, "protein_sequence": {"accession": "CAJ98570.1", "sequence": "MLHDTDRILKLAREAGLELAPGSLRLNEMGLDFQVAFGRDGDAVEWVLRMPRRTDVACAAVKEAKILDYFRSRLPVAVPDWKVFSDDLIAYPSLPGNPGLTFDASTYETTWHFDQNSPVYVETLGAALAQLHGLDTDDAISAGLSNLSIDAVRENWTRDLETVEKSFEVPAARLALWRAWLADLSFWPTHAASVHGDLYVGHVMVKSDGTVCGIIDWSEAHIGDPGIDLAGHLKVFGEASLRDLLGHYEAAGGQTWPRIVEHCKMLQSAEGIRYAMFALKTGSAEHLEGAQGLLSAPGI"}}}}}, "model_name": "mphF", "ARO_name": "mphF"}}, "1731": {"$update": {"model_sequences": {"$update": {"sequence": {"5076": {"dna_sequence": {"partial": "0", "sequence": "ATGAGTAAAGATATTAAACAAGTAATCGAGATAGCAAAAAAACACAATCTTTTTCTAAAAGAAGAAACGATACAGTTTAATGAATCAGGGCTTGATTTTCAAGCTGTTTTTGCACAAGATAATAATGGAATTGATTGGGTTCTAAGATTGCCTAGACGGGAAGATGTGATGCCTAGAACAAAGGTAGAAAAACAAGCTTTGGATTTGGTAAATAAGTACGCTATATCCTTTCAGGCACCAAACTGGATCATTTACACAGAGGAACTAATAGCTTATAAAAAGTTAGATGGTGTGCCAGCAGGTACGATAGATCATAACATAGGTAACTATATTTGGGAGATAGACATAAATAATGTTCCAGAATTATTTCACAAGTCGCTAGGCAGGGTGTTAGCAGAGCTTCATAGCATACCTAGTAATAAAGCCGCAGCGCTTGATCTTGTAGTACACACACCAGAAGAAGCAAGAATGTCAATGAAGCAGCGTATGGATGCAGTAAGAGCAAAGTTCGGAGTAGGTGAGAATCTATGGAACAGATGGCAAGCGTGGTTGAATGATGATGATATGTGGCCTAAGAAAACTGGACTGATTCATGGAGATGTACATGCCGGACATACTATGATTGATAAGGATGCCAATGTGACTGGATTAATCGATTGGACTGAAGCGAAGGTTACAGATGTTTCGCATGACTTTATTTTCAACTATAGAGCTTTTGGGGAAGAAGGGTTAGAAGCTTTAATTCTCGCTTATAAGGAAATTGGTGGATATTACTGGCCTAAAATGAAAGAGCATATTATCGAACTTAATGCAGCATACCCAGTTTCAATCGCTGAGTTTGCATTAGTGTCTGGAATTGAGGAATATGAGCAGATGGCAAAGGAAGCATTGGAAGTACAAGGTTCGTAA", "fmax": "94073", "accession": "NC_011964.1", "fmin": "93164", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Enterobacteriaceae", "NCBI_taxonomy_id": "543", "NCBI_taxonomy_cvterm_id": "40532"}, "protein_sequence": {"accession": "WP_000031017.1", "sequence": "MSKDIKQVIEIAKKHNLFLKEETIQFNESGLDFQAVFAQDNNGIDWVLRLPRREDVMPRTKVEKQALDLVNKYAISFQAPNWIIYTEELIAYKKLDGVPAGTIDHNIGNYIWEIDINNVPELFHKSLGRVLAELHSIPSNKAAALDLVVHTPEEARMSMKQRMDAVRAKFGVGENLWNRWQAWLNDDDMWPKKTGLIHGDVHAGHTMIDKDANVTGLIDWTEAKVTDVSHDFIFNYRAFGEEGLEALILAYKEIGGYYWPKMKEHIIELNAAYPVSIAEFALVSGIEEYEQMAKEALEVQGS"}}}}}}}, "1243": {"$update": {"model_sequences": {"$update": {"sequence": {"5075": {"dna_sequence": {"partial": "0", "sequence": "ATGACCGTAGTCACGACCGCCGATACCTCCCAACTGTACGCACTTGCAGCCCGACATGGGCTCAAGCTCCATGGCCCGCTGACTGTCAATGAGCTTGGGCTCGACTATAGGATCGTGATCGCCACCGTCGACGATGGACGTCGGTGGGTGCTGCGCATCCCGCGCCGAGCCGAGGTAAGCGCGAAGGTCGAACCAGAGGCGCGGGTGCTGGCAATGCTCAAGAATCGCCTGCCGTTCGCGGTGCCGGACTGGCGCGTGGCCAACGCCGAGCTCGTTGCCTATCCCATGCTCGAAGACTCGACTGCGATGGTCATCCAGCCTGGTTCGTCCACGCCCGACTGGGTCGTGCCGCAGGACTCGGAGGTCTTCGCGGAGAGCTTCGCGACCGCGCTCGCCGCCCTGCATGCCGTCCCCATTTCCGCCGCCGTGGATGCGGGGATGCTCATCCGTACACCGACGCAGGCCCGTCAGAAGGTGGCCGACGACGTTGACCGCGTCCGACGCGAGTTCGTGGTGAACGACAAGCGCCTCCACCGGTGGCAGCGCTGGCTCGACGACGATTCGTCGTGGCCAGATTTCTCCGTGGTGGTGCATGGCGATCTCTACGTGGGCCATGTGCTCATCGACAACACGGAGCGCGTCAGCGGGATGATCGACTGGAGCGAGGCCCGCGTTGATGACCCTGCCATCGACATGGCCGCGCACCTTATGGTCTTTGGTGAAGAGGGGCTCGCGAAGCTCCTCCTCACGTATGAAGCGGCCGGTGGCCGGGTGTGGCCGCGGCTCGCCCACCACATCGCGGAGCGCCTTGCGTTCGGGGCGGTCACCTACGCACTCTTCGCCCTCGACTCGGGTAACGAAGAGTACCTCGCTGCGGCGAAGGCGCAGCTCGCCGCAGCGGAAGCAGCGGAATGA", "fmax": "124002", "accession": "NZ_CP016035.1", "fmin": "123087", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Enterobacteriaceae", "NCBI_taxonomy_id": "543", "NCBI_taxonomy_cvterm_id": "40532"}, "protein_sequence": {"accession": "WP_023063803.1", "sequence": "MTVVTTADTSQLYALAARHGLKLHGPLTVNELGLDYRIVIATVDDGRRWVLRIPRRAEVSAKVEPEARVLAMLKNRLPFAVPDWRVANAELVAYPMLEDSTAMVIQPGSSTPDWVVPQDSEVFAESFATALAALHAVPISAAVDAGMLIRTPTQARQKVADDVDRVRREFVVNDKRLHRWQRWLDDDSSWPDFSVVVHGDLYVGHVLIDNTERVSGMIDWSEARVDDPAIDMAAHLMVFGEEGLAKLLLTYEAAGGRVWPRLAHHIAERLAFGAVTYALFALDSGNEEYLAAAKAQLAAAEAAE"}}}}}}}, "2889": {"$update": {"ARO_category": {"$insert": {"41644": {"category_aro_name": "TRU beta-lactamase", "category_aro_cvterm_id": "41644", "category_aro_accession": "3004449", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A class C beta-lactamase endogenous to Aeromonas enteropelogenes (tructi)"}}}}}, "2349": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2348": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2745": {"$update": {"model_param": {"41141": {"param_value": {"7768": "2661,1104,826,2306,431,1922,2776,228,2066,520"}, "param_type_id": "41141", "param_type": "efflux pump components", "param_description": "This detection model parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305."}}}}, "2369": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2368": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2367": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2366": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2365": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2364": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2363": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2362": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2361": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2360": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2810": {"$update": {"model_param": {"$update": {"snp": {"$update": {"param_value": {"$insert": {"8350": "A2058G", "8351": "A2058T", "8349": "A2058C", "8353": "A2059G", "8352": "A2059C"}}, "clinical": {"$insert": {"8350": "A2058G", "8351": "A2058T", "8349": "A2058C", "8353": "A2059G", "8352": "A2059C"}}}}}}}}, "714": {"$update": {"ARO_description": "A plasmid-associated trimethoprim-resistant dihydrofolate reductase detected in Bordetella bronchispetica on pKBB958.", "model_sequences": {"$update": {"sequence": {"5104": {"dna_sequence": {"partial": "0", "sequence": "ATGCAGCGTGTCGTCGGGCCACATAGAACACCTAGAAGTTCACAAGAAAGGTCGGAAATGGAACGAAGTAGCAATGAAGTCAGTAATCCAGTTGCTGGCAATTTTGTATTCCCATCGAACGCCACGTTTGGTATGGGAGATCGCGTGCGCAAGAAATCCGGCGCCGCCTGGCAAGGTCAGATTGTCGGGTGGTACTGCACAAATTTGACCCCCGAAGGCTACGCCGTCGAGTCTGAGGCTCACCCAGGCTCAGTACAGATTTATCCTGTTGCGGCGCTTGAACGCATCAACTGA", "fmax": "1930", "accession": "AY970968.1", "fmin": "1636", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "AAY33960.1", "sequence": "MQRVVGPHRTPRSSQERSEMERSSNEVSNPVAGNFVFPSNATFGMGDRVRKKSGAAWQGQIVGWYCTNLTPEGYAVESEAHPGSVQIYPVAALERIN"}}}}}}}, "1935": {"$update": {"model_param": {"$update": {"snp": {"$update": {"param_value": {"$delete": ["3848", "3847"]}, "clinical": {"$delete": ["3848", "3847"]}}}}}}}, "2350": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2340": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2370": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2277": {"$update": {"ARO_description": "mphM is a chromosomally-encoded macrolide phosphotransferases that inactivate 14-, 15- and 16-membered macrolides.", "model_sequences": {"$update": {"sequence": {"5083": {"dna_sequence": {"partial": "0", "sequence": "TTGAACAAACAAAAAGCGATAGAAATAGCAAGAAAGTATGGCTTGGAAGTTAAAGAGGGATCCATTATATTCAACGAGTCCGGTTTAGATTTTCTAGTTGCGTATGCAGAAGATTATAAAGGCGAAGAATGGGTGCTAAGGTTTCCGAGACGAGACGATGTGATGCCTAGGACTATAGTGGAGAAGAAAGCACTGGATCTTGTAAACAAATATGCCACTTTTCAGGTTCCAGTCTGGTCGCTTTATAAAAACGATCTAATAGCTTATAAAAAGTTAACCGGAGTGCCAGCAGGCACAATTGATCCAGAGATTCAAAATTATTTGTGGGAGATGGATTATGAAAATGTACCTGAACGATTTCACCAGACATTAGCCAAAGCGTTGGCTTCGCTACACACAATTCCGAAAGAAGAGGCTCTTAAAGTAGGCCTTTTTGTCCAGACAGCAGAAGAGGCCAGAAAATCGATGATTGAGCGTATGGAAAAGGTTAAGGCGAAGTTTGATGTAGGAAAATCCTTATGGAACCGCTGGCAGGCCTGGATAAAAAATGAAGAATTGTGGCCGCAGAAAACAGGCCTGATTCACGGTGATGTTCATGCTGGCCACACGATGATTGATAAAGATGCTAACGTAACCGGTTTAATCGACTGGACTGAAGCAAAAGTAACGGATGTATCAAATGACTTTGTTTTCCAGTACCGGGCATTTGGGGAAGCATCCCTGGAGAAACTGATCCAACATTACCGGCAAGCAGGCGGAATTTACTGGCCTGCCATGAAAGAGCACGTCATTGAACTTAATGCTGCATACCCTGTTGCGATAGCTGAGTTTGCGATTATCTCAGGTTTGGAAGAATATGAGCAGATGGCGAAAGAAACATTGCAAGTGAATGACCGCTAG", "fmax": "190432", "accession": "NZ_CP014284.1", "fmin": "189532", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus cereus group", "NCBI_taxonomy_id": "86661", "NCBI_taxonomy_cvterm_id": "42413"}, "protein_sequence": {"accession": "WP_001041372.1", "sequence": "MNKQKAIEIARKYGLEVKEGSIIFNESGLDFLVAYAEDYKGEEWVLRFPRRDDVMPRTIVEKKALDLVNKYATFQVPVWSLYKNDLIAYKKLTGVPAGTIDPEIQNYLWEMDYENVPERFHQTLAKALASLHTIPKEEALKVGLFVQTAEEARKSMIERMEKVKAKFDVGKSLWNRWQAWIKNEELWPQKTGLIHGDVHAGHTMIDKDANVTGLIDWTEAKVTDVSNDFVFQYRAFGEASLEKLIQHYRQAGGIYWPAMKEHVIELNAAYPVAIAEFAIISGLEEYEQMAKETLQVNDR"}}}}}, "model_name": "mphM", "ARO_name": "mphM"}}, "_timestamp": "2019-02-11T19:57:20+00:00", "2334": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2335": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2336": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2337": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2338": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2339": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2342": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "_version": "3.0.1", "2371": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "536": {"$update": {"ARO_description": "TEM-95 is a broad-spectrum beta-lactamase found in E. coli."}}, "2358": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2359": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2259": {"$update": {"model_sequences": {"$update": {"sequence": {"5087": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAAATAGAGATATTCAAAAATTAGCGGAAAGAAATGGGTTAATTCTTTCGGATGAAATGAGTTTTAATGAAATGGGAATTGATTTTAAGGTTGGTTTCGCTACAGATAGGGATGGCACAAAGTGGTTGTTGCGTATTCCAAGAAGAACAACCTTAGGCGAACAGATTGCGAATGAGAAACGCATTCTTCAATTGGTGTCGAAATACCTTTCGGTTCAAGTTCCTGATTGGCGTATAGCTAATGAAAAACTGGTAGCCTATCCTTTGCTCGATGGAAAACCTGCACTTACTTATGATGCGGAGACTTATGAAGTAACCTGGAATATGTCTAAAGAAAACGACCTTTATATACCATCATTAGCGAAAGCACTTATAGAACTTCATTCAATTCCTACGGAAGAAGTACTTCGTAATAATCTAAAAATTTTGACACCTGAACAGGTTAGAAATGAGATTTCTGAAAGATTGATTTTGGTGAAATCTGAATTAGGGATAAATGCCGAATTAGAACTTCGGTACCAAAAATGGCTGGATAATGATGCCTTATGGCCGAATTTTACAAAATTCATTCACGGTGATTTGTATGCAGGTCATACACTTACTCATCATAATGGAGAAGTTTGTGGAATTATTGATTGGTCAACTGCACAAGTCAGCGATATAGCACAAGATTTTTCAGGTCACGTTACTGTTTTCGGTGAAGAAAGTCTGAAAAATTTAATTGCGGCATACGAAAAACAAGGTGGAGAAGTATGGGATAAACTGTTTGAACAAGCAGTTGAACGAGCTGCTGCCGCACCTCTAGCTTATGGATATTTTGCTTTAGAAACACAAGATGAAATTCATCTTAGTTCTGCAAAATTACAGTTAGGTGTTGAGTAG", "fmax": "144308", "accession": "AB571865.1", "fmin": "143423", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Photobacterium damselae subsp. damselae", "NCBI_taxonomy_id": "85581", "NCBI_taxonomy_cvterm_id": "40398"}, "protein_sequence": {"accession": "BAL43359.1", "sequence": "MKNRDIQKLAERNGLILSDEMSFNEMGIDFKVGFATDRDGTKWLLRIPRRTTLGEQIANEKRILQLVSKYLSVQVPDWRIANEKLVAYPLLDGKPALTYDAETYEVTWNMSKENDLYIPSLAKALIELHSIPTEEVLRNNLKILTPEQVRNEISERLILVKSELGINAELELRYQKWLDNDALWPNFTKFIHGDLYAGHTLTHHNGEVCGIIDWSTAQVSDIAQDFSGHVTVFGEESLKNLIAAYEKQGGEVWDKLFEQAVERAAAAPLAYGYFALETQDEIHLSSAKLQLGVE"}}}}}}}, "2352": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2353": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2062": {"$update": {"model_sequences": {"$update": {"sequence": {"5077": {"dna_sequence": {"partial": "0", "sequence": "ATGACTCGACATAATGAAATTATTAAATGTGCAGAAAAATATCAATTACACATCCAACCTCAAACAATCTCATTGAATGAATCGGGACTTGATTTCCAAGTTGCATTTGGAAAAGATAAACATGGAGTAGAATGGGTTTTGAGACTGCCAAGAAGACCTGATGTTTATAAACGAACAAAACCCGAAAAACAAACGGTAGACTTCTTACAGAAGAATGTTTCATTTGAAGTACCGAAATGGAAAGTACACGAAAGAGACCTTATTGCGTATCCAAAACTTACAGGTAAACCCGCAGCCACAATAGATCCAGAAATACAAAATTATGTATGGGAAATTGAACACAAACCATTACCAGAAAACTTTATTAACACATTAGCTGAAACACTCGTAGATTTACACAACATACCAGAAGAAAACATTAACGTTCAGCATATAAATATCAAAACCATACAAGAAATAAAAAATGACTTTCAAAGAAGAATGAATAAAGTTAAAGAAACTTATGGTGTATCAGATGAATTATGGAACAGATGGAAACAATGGTTAGAAAACGACGAACTATGGCCTCGACATGCGACCATGATACATGGGGACTTACATCCAGGACATATAATGGTAGATAACCAAGCAAACGTCACAGGTCTCATAGACTGGACTGAAGCAACCCACTCCGACCCATCAATGGACTTTATGGGACACCATCGTGTATTCGACGACGAAGGATTAGAGCAACTCATAACAGCATATGGTAAAGCTGGAGGTGAAATATGGCCACGAATGAAAGAGCATATAATAGAACTCAATGCAGTATTCCCAATGTTTATCGCTGAGTTTGCTATGGAATCAGGAGAATCGGCGTATGAAACGATGGCATTGAAAGAGTTAGGTATGAAAGAGTAG", "fmax": "1000", "accession": "NG_047989.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Staphylococcus aureus", "NCBI_taxonomy_id": "1280", "NCBI_taxonomy_cvterm_id": "35508"}, "protein_sequence": {"accession": "WP_063853881.1", "sequence": "MTRHNEIIKCAEKYQLHIQPQTISLNESGLDFQVAFGKDKHGVEWVLRLPRRPDVYKRTKPEKQTVDFLQKNVSFEVPKWKVHERDLIAYPKLTGKPAATIDPEIQNYVWEIEHKPLPENFINTLAETLVDLHNIPEENINVQHINIKTIQEIKNDFQRRMNKVKETYGVSDELWNRWKQWLENDELWPRHATMIHGDLHPGHIMVDNQANVTGLIDWTEATHSDPSMDFMGHHRVFDDEGLEQLITAYGKAGGEIWPRMKEHIIELNAVFPMFIAEFAMESGESAYETMALKELGMKE"}}}}}}}, "2351": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2356": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2357": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2354": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}, "2355": {"$update": {"ARO_category": {"$update": {"40543": {"$update": {"category_aro_name": "ADC beta-lactamase without carbapenemase activity"}}}}}}}, "$delete": ["2829"], "$insert": {"2907": {"model_id": "2907", "ARO_accession": "3004476", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "vmlR is an ABC-F ATPase ribosomal protection protein identified in Bacillus subtilus. Shown to confer resistance to lincomycin and streptogramin A virginiamycin. Described by Crowe-McAuliffe et al. 2018.", "model_sequences": {"sequence": {"4760": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAGAGATCGTAACATTAACAAACGTTAGCTATGAAGTAAAGGATCAAACTGTTTTTAAACATGTAAACGCCAGTGTTCAGCAAGGAGATATCATTGGGATTATCGGCAAAAACGGCGCTGGGAAATCTACGTTGCTGCACCTCATTCACAATGACTTAGCCCCTGCACAGGGTCAAATCCTTCGGAAGGATATAAAACTGGCTTTGGTTGAACAGGAAACCGCGGCGTATTCCTTTGCGGATCAGACACCTGCCGAAAAGAAGTTACTGGAGAAATGGCATGTGCCTCTTCGTGATTTTCATCAGTTAAGCGGCGGTGAAAAACTGAAAGCGCGGCTGGCGAAAGGACTATCAGAGGATGCAGATCTGCTGCTGTTAGATGAACCGACAAACCACCTTGATGAAAAAAGCTTGCAATTTCTCATCCAACAGCTGAAACATTATAACGGCACTGTGATTCTCGTTTCTCACGATCGATATTTTTTAGACGAAGCCGCAACAAAAATATGGTCGCTTGAGGATCAGACGCTGATTGAATTCAAAGGGAATTACTCCGGGTATATGAAGTTCCGGGAGAAGAAAAGACTCACCCAGCAGCGTGAATATGAAAAGCAGCAAAAAATGGTTGAACGGATTGAAGCACAAATGAATGGGCTCGCTTCTTGGTCGGAAAAAGCCCATGCTCAATCGACGAAAAAGGAAGGGTTTAAAGAATATCACCGGGTAAAAGCGAAGCGTACGGATGCCCAGATAAAATCCAAGCAGAAGCGGCTTGAAAAAGAGCTTGAAAAAGCAAAGGCGGAACCCGTTACCCCAGAATATACAGTCCGCTTTTCAATCGATACAACCCACAAAACAGGAAAACGTTTTTTAGAAGTTCAGAATGTAACAAAAGCGTTTGGAGAAAGGACTCTCTTTAAAAACGCAAACTTTACAATTCAGCACGGCGAAAAGGTTGCGATCATAGGCCCCAATGGCAGCGGAAAAACGACATTACTGAACATCATTCTGGGACAGGAAACAGCAGAAGGAAGTGTATGGGTGTCGCCGTCCGCAAACATCGGCTATTTAACGCAGGAGGTGTTTGATTTGCCTTTAGAACAAACACCGGAAGAGTTATTTGAGAATGAAACATTCAAAGCAAGGGGGCACGTTCAAAATCTGATGAGGCACTTAGGTTTTACAGCCGCCCAATGGACTGAACCGATCAAGCATATGAGTATGGGTGAGCGTGTAAAGATCAAGCTGATGGCATATATTCTGGAGGAAAAAGACGTGCTGATTTTAGATGAGCCGACAAACCATCTCGACCTGCCGTCACGCGAACAGCTGGAAGAAACACTGTCACAATACAGCGGCACATTGCTGGCGGTTTCACATGACCGATACTTTCTCGAAAAAACAACAAACAGTAAACTCGTCATCTCAAACAACGGCATCGAAAAGCAGTTAAACGACGTTCCTTCAGAAAGAAATGAGCGGGAGGAGCTTCGGTTAAAGCTTGAGACAGAAAGACAAGAAGTGCTGGGAAAGCTCAGTTTTATGACGCCAAATGATAAAGGGTATAAGGAGCTTGATCAGGCTTTCAATGAGCTTACGAAACGAATAAAAGAGCTGGATCATCAAGACAAAAAAGACTGA", "fmax": "606379", "accession": "NC_000964.3", "fmin": "604735", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus subtilis subsp. subtilis str. 168", "NCBI_taxonomy_id": "224308", "NCBI_taxonomy_cvterm_id": "39579"}, "protein_sequence": {"accession": "NP_388442.1", "sequence": "MKEIVTLTNVSYEVKDQTVFKHVNASVQQGDIIGIIGKNGAGKSTLLHLIHNDLAPAQGQILRKDIKLALVEQETAAYSFADQTPAEKKLLEKWHVPLRDFHQLSGGEKLKARLAKGLSEDADLLLLDEPTNHLDEKSLQFLIQQLKHYNGTVILVSHDRYFLDEAATKIWSLEDQTLIEFKGNYSGYMKFREKKRLTQQREYEKQQKMVERIEAQMNGLASWSEKAHAQSTKKEGFKEYHRVKAKRTDAQIKSKQKRLEKELEKAKAEPVTPEYTVRFSIDTTHKTGKRFLEVQNVTKAFGERTLFKNANFTIQHGEKVAIIGPNGSGKTTLLNIILGQETAEGSVWVSPSANIGYLTQEVFDLPLEQTPEELFENETFKARGHVQNLMRHLGFTAAQWTEPIKHMSMGERVKIKLMAYILEEKDVLILDEPTNHLDLPSREQLEETLSQYSGTLLAVSHDRYFLEKTTNSKLVISNNGIEKQLNDVPSERNEREELRLKLETERQEVLGKLSFMTPNDKGYKELDQAFNELTKRIKELDHQDKKD"}}}}, "ARO_category": {"41687": {"category_aro_name": "ABC-F ATP-binding cassette ribosomal protection protein", "category_aro_cvterm_id": "41687", "category_aro_accession": "3004469", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A subfamily of the ATP-binding cassette protein superfamily. Unlike other ABC proteins, ABC-F genes are not fused to a transmembrane domain nor associated with transport. It has been shown that ABC-F proteins confer antibiotic resistance via ribosomal protection and not antibiotic efflux as in other ABC proteins."}, "35999": {"category_aro_name": "antibiotic target protection", "category_aro_cvterm_id": "35999", "category_aro_accession": "0001003", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Protection of antibiotic action target from antibiotic binding, which process will result in antibiotic resistance."}}, "ARO_name": "vmlR", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "41736", "model_name": "vmlR", "model_type_id": "40292"}, "2960": {"model_id": "2960", "ARO_accession": "3004489", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An OXA-10 family class beta-lactamase identified from a Klebsiella pneumoniae BIDMC 35 isolate.", "model_sequences": {"sequence": {"4835": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAACATTTGCCGCATATGTAATTATCGCGTGTCTTTCGAGTAAGGCATTAGCTGGTTCAATTACAGAAAATACGTCTTGGAACAAAGAGTTCTCTGCCGAAGCCGTCAATGGTGTCTTCGTGCTTTGTAAAAGTAGCAGTAAATCCTGCGCTACCAATGACTTAGCTCGTGCATCAAAGGAATATCTTCCAGCATCAACATTTAAGATCCCCAACGCAATTATCGGCCTAGAAACTGGTGTCATAAAGAATGAGCATCAGGTTTTCAAATGGGACGGAAAGCCAAGAGCCATGAAGCAATGGGAAAGAGACTTGACCTTAAGAGGGGCAATACAAGTTTCAGCTGTTCCCGTATTTCAACAAATCGCCAGAGAAGTTGGCGAAGTAAGAATGCAGAAATACCTTAAAAAATTTTCCTATGGCAACCAGAATATCAGTGGTGGCATTGACAAATTCTGGTTGGAAGGCCAGCTTAGAATTTCCGCAGTTAATCAAGTGGAGTTTCTAGAGTCTCTATATTTAAATAAATTGTCAGCATCTAAAGAAAACCAGCTAATAGTAAAAGAGGCTTTGGTAACGGAGGCGGCACCTGAATATCTAGTGCATTCAAAAACTGGTTTTTCTGGTGTGGGAACTGAGTCAAATCCTGGTGTCGCATGGTGGGTTGGGTGGGTTGAGAAGGAGACAGAGGTTTACTTTTTCGCCTTTAACATGGATATAGACAACGAAAGTAAGTTGCCGCTAAGAAAATCCATTCCCACCAAAATCATGGAAAGTGAGGGCATCATTGGTGGCTAA", "fmax": "901", "accession": "NG_061386.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}, "protein_sequence": {"accession": "WP_032410229.1", "sequence": "MKTFAAYVIIACLSSKALAGSITENTSWNKEFSAEAVNGVFVLCKSSSKSCATNDLARASKEYLPASTFKIPNAIIGLETGVIKNEHQVFKWDGKPRAMKQWERDLTLRGAIQVSAVPVFQQIAREVGEVRMQKYLKKFSYGNQNISGGIDKFWLEGQLRISAVNQVEFLESLYLNKLSASKENQLIVKEALVTEAAPEYLVHSKTGFSGVGTESNPGVAWWVGWVEKETEVYFFAFNMDIDNESKLPLRKSIPTKIMESEGIIGG"}}}}, "ARO_category": {"36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36026": {"category_aro_name": "OXA beta-lactamase", "category_aro_cvterm_id": "36026", "category_aro_accession": "3000017", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "OXA beta-lactamases were long recognized as a less common but also plasmid-mediated beta-lactamase variety that could hydrolyze oxacillin and related anti-staphylococcal penicillins. These beta-lactamases differ from the TEM and SHV enzymes in that they belong to molecular class D and functional group 2d. The OXA-type beta-lactamases confer resistance to ampicillin and cephalothin and are characterized by their high hydrolytic activity against oxacillin and cloxacillin and the fact that they are poorly inhibited by clavulanic acid. Amino acid substitutions in OXA enzymes can also give the ESBL phenotype. The OXA beta-lactamase family was originally created as a phenotypic rather than a genotypic group for a few beta-lactamases that had a specific hydrolysis profile. Therefore, there is as little as 20% sequence homology among some of the members of this family. However, recent additions to this family show some degree of homology to one or more of the existing members of the OXA beta-lactamase family. Some confer resistance predominantly to ceftazidime, but OXA-17 confers greater resistance to cefotaxime and cefepime than it does resistance to ceftazidime."}}, "ARO_name": "OXA-663", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "41930", "model_name": "OXA-663", "model_type_id": "40292"}, "2909": {"model_id": "2909", "ARO_accession": "3004479", "model_param": {"blastp_bit_score": {"param_value": "450", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "Beta-lactamase found in Acinetobacter spp. efficiently inactivating carbapenems and amoxicillin conferring resistance to cephalosporins", "model_sequences": {"sequence": {"4762": {"dna_sequence": {"partial": "0", "sequence": "ATGTGGATGTTAAAAACGATATCTTGTTCAGTTTTAAGCTGGATGTTGTTAAGTGCATGCAGTCAGCAAACTCTGAAAGATCAAATGCAACAGCCATTGATGATGCAACAACCACGGTTAGCAGAGTTGAATCATATGTTTCAAGCAGTGGATAGCGCCGTGGTCTTTGTGACTTATGATGGGGAAAAATTACAGCGTTTTGGCAATGATTTGCATCGTGCCGAAACTGCCTATATACCAGCTTCAACTTTTAAAATACTAAATGCTTTAATTGGTTTGCAGCAGCATAAAACCACGACCACTGAAGTATTTGTATGGGATGGAAAAGCACGTGCATTGAAAAGTTGGGAACGGGATATGACTTTGGCAGAGGCGATGCAAGTCTCGGCAGTTCCCGTCTATCAAACCTTAGCGCGACGAATTGGTCTACCACTGATGCAAAAAGAGCTTCATCGTGTCGATTATGGAAATGCTCAGATTGGGACACAGGTTGATCGGTTTTGGTTAGATGGACCCTTAAAAATCACACCACAACAAGAAGCTGAATTTGCTTACAGACTTGCGACTCAGACTTTACCTTTTGATATACATGTGCAACAAGAGGTAAAGGAAATGCTTTATGTGGAGCGACGCGGTGTTGCTAAATTGTATGCTAAGTCAGGATGGGGAGCCGATGTAAAACCTCAGGTGGGTTAG", "fmax": "191927", "accession": "AQFM01000048.1", "fmin": "191231", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Acinetobacter tandoii DSM 14970 = CIP 107469", "NCBI_taxonomy_id": "1120927", "NCBI_taxonomy_cvterm_id": "41739"}, "protein_sequence": {"accession": "EOR02560.1", "sequence": "MWMLKTISCSVLSWMLLSACSQQTLKDQMQQPLMMQQPRLAELNHMFQAVDSAVVFVTYDGEKLQRFGNDLHRAETAYIPASTFKILNALIGLQQHKTTTTEVFVWDGKARALKSWERDMTLAEAMQVSAVPVYQTLARRIGLPLMQKELHRVDYGNAQIGTQVDRFWLDGPLKITPQQEAEFAYRLATQTLPFDIHVQQEVKEMLYVERRGVAKLYAKSGWGADVKPQVG"}}}}, "ARO_category": {"36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36026": {"category_aro_name": "OXA beta-lactamase", "category_aro_cvterm_id": "36026", "category_aro_accession": "3000017", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "OXA beta-lactamases were long recognized as a less common but also plasmid-mediated beta-lactamase variety that could hydrolyze oxacillin and related anti-staphylococcal penicillins. These beta-lactamases differ from the TEM and SHV enzymes in that they belong to molecular class D and functional group 2d. The OXA-type beta-lactamases confer resistance to ampicillin and cephalothin and are characterized by their high hydrolytic activity against oxacillin and cloxacillin and the fact that they are poorly inhibited by clavulanic acid. Amino acid substitutions in OXA enzymes can also give the ESBL phenotype. The OXA beta-lactamase family was originally created as a phenotypic rather than a genotypic group for a few beta-lactamases that had a specific hydrolysis profile. Therefore, there is as little as 20% sequence homology among some of the members of this family. However, recent additions to this family show some degree of homology to one or more of the existing members of the OXA beta-lactamase family. Some confer resistance predominantly to ceftazidime, but OXA-17 confers greater resistance to cefotaxime and cefepime than it does resistance to ceftazidime."}}, "ARO_name": "OXA-664", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "41740", "model_name": "OXA-664", "model_type_id": "40292"}, "3140": {"model_id": "3140", "ARO_accession": "3004512", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 polymyxin resistance gene variant identified in colistin-resistance Enterobacteriaceae", "model_sequences": {"sequence": {"4998": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTTCCGCTTATGTTCTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAAGATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAATAAAGCCTTTTTTTGCACTTCTTATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCGTTAGCATATTTAAGCTTACCAATTATAGTATGGGTTACTATTGCTGGTTTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGGAAAAATGGTTCAAAGGGATTCTAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTGTCAGTGGGGCGCAACAATTCAAACCTCCAGCGTGAGATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATACGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTTCTGGTCGTTGGTGAAACCGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGACACCAATCCATTTACCAGTAAATCTGGTGGCGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCCGTCCCCTGCATGTTCTCCAATATGGGGAGAAAGGAGTTTGATGATAATCGCGCTCGCAATAGCGAGGGCCTGCTAGATGTGTTGCAAAAAACGGGGATCTCCATTTTTTGGAAGGAGAACGATGGAGGCTGCAAAGGCGTCTGCGACCGAGTACCTAACATCGAAATCGAACCAAAGGATCACCCTAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGACCTCGATAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAGCGCTACCCTGATGCTCATCGTCAGTTCACCCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACCGATTTCGTGATTGGAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCATGGTGAATCACTGGGAGCATTAGGGCTTTACCTACACGGTACACCGTACCAGTTTGCACCGGATGATCAGACCCGTGTTCCTATGCAGGTGTGGATGTCACCTGGATTTACCAAAGAGAAAGGCGTTGATATGGCGTGTTTGCAGCAGAAAGCCGCTGATACTCGTTACTCACACGATAATATTTTCTCATCTGTATTGGGTATCTGGGACGTCAAAACATCAGTTTACGAAAAGGGTCTAGATATTTTCAGTCAATGTCGTAATGTTCAATAA", "fmax": "1726", "accession": "NG_055505.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Enterobacteriaceae", "NCBI_taxonomy_id": "543", "NCBI_taxonomy_cvterm_id": "40532"}, "protein_sequence": {"accession": "WP_039026394.1", "sequence": "MPSLIKIKIVPLMFFLALYFAFMLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFVFVPFSIRYLIKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIVWVTIAGFIPAILLFFVEIEYEEKWFKGILTRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNRARNSEGLLDVLQKTGISIFWKENDGGCKGVCDRVPNIEIEPKDHPKFCDKNTCYDEVVLQDLDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIGEMIAKLKTYEDKYNTALLYVSDHGESLGALGLYLHGTPYQFAPDDQTRVPMQVWMSPGFTKEKGVDMACLQQKAADTRYSHDNIFSSVLGIWDVKTSVYEKGLDIFSQCRNVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.1", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42221", "model_name": "MCR-3.1", "model_type_id": "40292"}, "3141": {"model_id": "3141", "ARO_accession": "3004513", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-1 polymyxin resistance gene variant identified from colistin-resistant Salmonella enterica (serovar typhimurium) isolate, carried by an IncP plasmid.", "model_sequences": {"sequence": {"4999": {"dna_sequence": {"partial": "0", "sequence": "ATGATGCAGCATACTTCTGTGTGGTACCGACGCTCGGTCAGTCCGTTTGTTCTTGTGGCGAGTGTTGCCGTTTTCTTGACCGCGACCGCCAATCTTACCTTTTTTGATAAAATCAGCCAAACCTATCCCATCGCGGACAATCTCGGCTTTGTGCTGACGATCGCTGTCGTGCTCTTTGGCGCGATGCTACTGATCACCACGCTGTTATCATCGTATCGCTATGTGCTAAAGCCTGTGTTGATTTTGCTATTAATCATGGGCGCGGTGACCAGTTATTTTACTGACACTTATGGCACGGTCTATGATACGACCATGCTCCAAAATGCCCTACAGACCGACCAAGCCGAGACCAAGGATCTATTAAACGCAGCGTTTATCATGCGTATCATTGGTTTGGGTGTGCTACCAAGTTTGCTTGTGGCTTTTGTTAAGGTGGATTATCCGACTTGGGGCAAGGGTTTGATGCGCCGATTGGGCTTGATCGTGGCAAGTCTTGCGCTGATTTTACTGCCTGTGGTGGCGTTCAGCAGTCATTATGCCAGTTTCTTTCGCGTGCATAAGCCGCTGCGTAGCTATGTCAATCCGATCATGCCAATCTACTCGGTGGGTAAGCTTGCCAGTATTGAGTATAAAAAAGCCAGTGCGCCAAAAGATACCATTTATCACGCCAAAGACGCGGTACAAGCAACCAAGCCTGATATGCGTAAGCCACGCCTAGTGGTGTTCGTCGTCGGTGAGACGGCACGCGCCGATCATGTCAGCTTCAATGGCTATGAGCGCGATACTTTCCCACAGCTTGCCAAGATCGATGGCGTGACCAATTTTAGCAATGTCACATCGTGCGGCACATCGACGGCGTATTCTGTGCCGTGTATGTTCAGCTATCTGGGCGCGGATGAGTATGATGTCGATACCGCCAAATACCAAGAAAATGTGCTGGATACGCTGGATCGCTTGGGCGTAAGTATCTTGTGGCGTGATAATAATTCGGACTCAAAAGGCGTGATGGATAAGCTGCCAAAAGCGCAATTTGCCGATTATAAATCCGCGACCAACAACGCCATCTGCAACACCAATCCTTATAACGAATGCCGCGATGTCGGTATGCTCGTTGGCTTAGATGACTTTGTCGCTGCCAATAACGGCAAAGATATGCTGATCATGCTGCACCAAATGGGCAATCACGGGCCTGCGTATTTTAAGCGATATGATGAAAAGTTTGCCAAATTCACGCCAGTGTGTGAAGGTAATGAGCTTGCCAAATGCGAACATCAGTCCTTGATCAATGCTTATGACAATGCCTTGCTTGCCACCGATGATTTCATCGCTCAAAGTATCCAGTGGCTGCAGACGCACAGCAATGCCTATGATGTCTCAATGCTGTATGTCAGCGATCATGGCGAAAGTCTGGGTGAGAACGGTGTCTATCTACATGGTATGCCAAATGCCTTTGCACCAAAAGAACAGCGCAGTGTGCCTGCATTTTTCTGGACGGATAAGCAAACTGGCATCACGCCAATGGCAACCGATACCGTCCTGACCCATGACGCGATCACGCCGACATTATTAAAGCTGTTTGATGTCACCGCGGACAAAGTCAAAGACCACACCGCATTCATCCGCTGA", "fmax": "1726", "accession": "NG_052893.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Salmonella enterica", "NCBI_taxonomy_id": "28901", "NCBI_taxonomy_cvterm_id": "35672"}, "protein_sequence": {"accession": "WP_077248208.1", "sequence": "MMQHTSVWYRRSVSPFVLVASVAVFLTATANLTFFDKISQTYPIADNLGFVLTIAVVLFGAMLLITTLLSSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAETKDLLNAAFIMRIIGLGVLPSLLVAFVKVDYPTWGKGLMRRLGLIVASLALILLPVVAFSSHYASFFRVHKPLRSYVNPIMPIYSVGKLASIEYKKASAPKDTIYHAKDAVQATKPDMRKPRLVVFVVGETARADHVSFNGYERDTFPQLAKIDGVTNFSNVTSCGTSTAYSVPCMFSYLGADEYDVDTAKYQENVLDTLDRLGVSILWRDNNSDSKGVMDKLPKAQFADYKSATNNAICNTNPYNECRDVGMLVGLDDFVAANNGKDMLIMLHQMGNHGPAYFKRYDEKFAKFTPVCEGNELAKCEHQSLINAYDNALLATDDFIAQSIQWLQTHSNAYDVSMLYVSDHGESLGENGVYLHGMPNAFAPKEQRSVPAFFWTDKQTGITPMATDTVLTHDAITPTLLKLFDVTADKVKDHTAFIR"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-1.6", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42222", "model_name": "MCR-1.6", "model_type_id": "40292"}, "3142": {"model_id": "3142", "ARO_accession": "3004514", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-1 polymyxin resistance gene variant identified from a poultry Raoultella planticola isolate", "model_sequences": {"sequence": {"5000": {"dna_sequence": {"partial": "0", "sequence": "ATGATGCAGCATACTTCTGTGTGGTACCGACGCTCGGTCAGTCCGTTTGTTCTTGTGGCGAGTGTTGCCGTTTTCTTGACCGCGACCGCCAATCTTACCTTTTTTGATAAGGTCAGCCAAACCTATCCCATCGCGGACAATCTCGGCTTTGTGCTGACGATCGCTGTCGTGCTCTTTGGCGCGATGCTACTGATCACCACGCTGTTATCATCGTATCGCTATGTGCTAAAGCCTGTGTTGATTTTGCTATTAATCATGGGCGCGGTGACCAGTTATTTTACTGACACTTATGGCACGGTCTATGATACGACCATGCTCCAAAATGCCCTACAGACCGACCAAGCCGAGACCAAGGATCTATTAAACGCAGCGTTTATCATGCGTATCATTGGTTTGGGTGTGCTACCAAGTTTGCTTGTGGCTTTTGTTAAGGTGGATTATCCGACTTGGGGCAAGGGTTTGATGCGCCGATTGGGCTTGATCGTGGCAAGTCTTGCGCTGATTTTACTGCCTGTGGTGGCGTTCAGCAGTCATTATGCCAGTTTCTTTCGCGTGCATAAGCCGCTGCGTAGCTATGTCAATCCGATCATGCCAATCTACTCGGTGGGTAAGCTTGCCAGTATTGAGTATAAAAAAGCCAGTGCGCCAAAAGATACCATTTATCACGCCAAAGACGCGGTACAAGCAACCAAGCCTGATATGCGTAAGCCACGCCTAGTGGTGTTCGTCGTCGGTGAGACGGCACGCGCCGATCATGTCAGCTTCAATGGCTATGAGCGCGATACTTTCCCACAGCTTGCCAAGATCGATGGCGTGACCAATTTTAGCAATGTCACATCGTGCGGCACATCGACGGCGTATTCTGTGCCGTGTATGTTCAGCTATCTGGGCGCGGATGAGTATGATGTCGATACCGCCAAATACCAAGAAAATGTGCTGGATACGCTGGATCGCTTGGGCGTAAGTATCTTGTGGCGTGATAATAATTCGGACTCAAAAGGCGTGATGGATAAGCTGCCAAAAGCGCAATTTGCCGATTATAAATCCGCGACCAACAACGCCATCTGCAACACCAATCCTTATAACGAATGCCGCGATGTCGGTATGCTCGTTGGCTTAGATGACTTTGTCGCTGCCAATAACGGCAAAGATATGCTGATCATGCTGCACCAAATGGGCAATCACGGGCCTGCGTATTTTAAGCGATATGATGAAAAGTTTGCCAAATTCACGCCAGTGTGTGAAGGTAATGAGCTTGCCAAGTGCGAACATCAGTCCTTGATCAATGCTTATGACAATGCCTTGCTTGCCACCGATGATTTCATCGCTCAAAGTATCCAGTGGCTGCAGACGCACAGCAATGCCTATGATGTCTCAATGCTGTATGTCAGCGATCATGGCGAAAGTCTGGGTGAGAACGGTGTCTATCTACATGGTATGCCAAATGCCTTTGCACCAAAAGAACAGCGCAGTGTGCCTGCATTTTTCTGGACGGATAAGCAAACTGGCATCACGCCAATGGCAACCGATACCGTCCTGACCCATGACGCGATCACGCCGACATTATTAAAGCTGTTTGATGTCACCGCGGACAAAGTCAAAGACCGCACCGCATTCATCCGCTGA", "fmax": "1726", "accession": "NG_052861.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "WP_077064885.1", "sequence": "MMQHTSVWYRRSVSPFVLVASVAVFLTATANLTFFDKVSQTYPIADNLGFVLTIAVVLFGAMLLITTLLSSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAETKDLLNAAFIMRIIGLGVLPSLLVAFVKVDYPTWGKGLMRRLGLIVASLALILLPVVAFSSHYASFFRVHKPLRSYVNPIMPIYSVGKLASIEYKKASAPKDTIYHAKDAVQATKPDMRKPRLVVFVVGETARADHVSFNGYERDTFPQLAKIDGVTNFSNVTSCGTSTAYSVPCMFSYLGADEYDVDTAKYQENVLDTLDRLGVSILWRDNNSDSKGVMDKLPKAQFADYKSATNNAICNTNPYNECRDVGMLVGLDDFVAANNGKDMLIMLHQMGNHGPAYFKRYDEKFAKFTPVCEGNELAKCEHQSLINAYDNALLATDDFIAQSIQWLQTHSNAYDVSMLYVSDHGESLGENGVYLHGMPNAFAPKEQRSVPAFFWTDKQTGITPMATDTVLTHDAITPTLLKLFDVTADKVKDRTAFIR"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-1.3", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42223", "model_name": "MCR-1.3", "model_type_id": "40292"}, "3143": {"model_id": "3143", "ARO_accession": "3004515", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-1 polymyxin resistance gene variant identified from a colistin-resistant Escherichia coli isolate.", "model_sequences": {"sequence": {"5001": {"dna_sequence": {"partial": "0", "sequence": "ATGATGCAGCATACTTCTGTGTGGTACCGACGCTCGGTCAGTCCGTTTGTTCTTGTGGCGAGTGTTGCCGTTTTCTTGACCGCGACCGCCAATCTTACCTTTTTTGATAAAATCAGCCAAACCTATCCCATCGCGGACAATCTCGGCTTTGTGCTGACGATCGCTGTCGTGCTCTTTGGCGCGATGCTACTGATCACCACGCTGTTATCATCGTATCGCTATGTGCTAAAGCCTGTGTTGATTTTGCTATTAATCATGGGCGCGGTGACCAGTTATTTTACTGACACTTATGGCACGGTCTATGATACGACCATGCTCCAAAATGCCCTACAGACCGACCAAGCCGAGACCAAGGATCTATTAAACGCAGCGTTTATCATGCGTATCATTGGTTTGGGTGTGCTACCAAGTTTGCTTGTGGCTTTTGTTAAGGTGGATTATCCGACTTGGGGCAAGGGTTTGATGCGCCGATTGGGCTTGATCGTGGCAAGTCTTGCGCTGATTTTACTGCCTGTGGTGGCGTTCAGCAGTCATTATGCCAGTTTCTTTCGCGTGCATAAGCCGCTGCGTAGCTATGTCAATCCGATCATGCCAATCTACTCGGTGGGTAAGCTTGCCAGTATTGAGTATAAAAAAGCCAGTGCGCCAAAAGATACCATTTATCACGCCAAAGACGCGGTACAAGCAACCAAGCCTGATATGCGTAAGCCACGCCTAGTGGTGTTCGTCGTCGGTGAGACGGCACGCGCCGATCATGTCAGCTTCAATGGCTATGAGCGCGATACTTTCCCACAGCTTGCCAAGATCGATGGCGTGACCAATTTTAGCAATGTCACATCGTGCGGCACATCGACGGCGTATTCTGTGCCGTGTATGTTCAGCTATCTGGGCGCGGATGAGTATGATGTCGATACCGCCAAATACCAAGAAAATGTGCTGGATACGCTGGATCGCTTGGGCGTAAGTATCTTGTGGCGTGATAATAATTCGGACTCAAAAGGCGTGATGGATAAGCTGCCAAAAGCGCAATTTGCCGATTATAAATCCGCGACCAACAACGCCATCTGCAACACCAATCCTTATAACGAATGCCGCGATGTCGGTATGCTCGTTGGCTTAGATGACTTTGTCGCTGCCAATAACGGCAAAGATATGCTGATCATGCTGCACCAAATGGGCAATCACGGGCCTGCGTATTTTAAGCGATATGATGAAAAGTTTGCCAAATTCACGCCAGTGTGTGAAGGTAATGAGCTTGCCAAGTGCGAACATCAGTCCTTGATCAATGCTTATGACAATGCCTTGCTTGCCACCGATAATTTCATCGCTCAAAGTATCCAGTGGCTGCAGACGCACAGCAATGCCTATGATGTCTCAATGCTGTATGTCAGCGATCATGGCGAAAGTCTGGGTGAGAACGGTGTCTATCTACATGGTATGCCAAATGCCTTTGCACCAAAAGAACAGCGCAGTGTGCCTGCATTTTTCTGGACGGATAAGCAAACTGGCATCACGCCAATGGCAACCGATACCGTCCTGACCCATGACGCGATCACGCCGACATTATTAAAGCTGTTTGATGTCACCGCGGACAAAGTCAAAGACCGCACCGCATTCATCCGCTGA", "fmax": "1626", "accession": "NG_052664.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "WP_076611062.1", "sequence": "MMQHTSVWYRRSVSPFVLVASVAVFLTATANLTFFDKISQTYPIADNLGFVLTIAVVLFGAMLLITTLLSSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAETKDLLNAAFIMRIIGLGVLPSLLVAFVKVDYPTWGKGLMRRLGLIVASLALILLPVVAFSSHYASFFRVHKPLRSYVNPIMPIYSVGKLASIEYKKASAPKDTIYHAKDAVQATKPDMRKPRLVVFVVGETARADHVSFNGYERDTFPQLAKIDGVTNFSNVTSCGTSTAYSVPCMFSYLGADEYDVDTAKYQENVLDTLDRLGVSILWRDNNSDSKGVMDKLPKAQFADYKSATNNAICNTNPYNECRDVGMLVGLDDFVAANNGKDMLIMLHQMGNHGPAYFKRYDEKFAKFTPVCEGNELAKCEHQSLINAYDNALLATDNFIAQSIQWLQTHSNAYDVSMLYVSDHGESLGENGVYLHGMPNAFAPKEQRSVPAFFWTDKQTGITPMATDTVLTHDAITPTLLKLFDVTADKVKDRTAFIR"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-1.4", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42224", "model_name": "MCR-1.4", "model_type_id": "40292"}, "3144": {"model_id": "3144", "ARO_accession": "3004516", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A novel phosphoethanolamine transferase and mobile colistin resistance gene identified from carbapenem-resistant NDM-1-producing Klebsiella pneumoniae.", "model_sequences": {"sequence": {"5002": {"dna_sequence": {"partial": "0", "sequence": "ATGTTCAAGTATCTTTTATCTTTCAAACTGAACCCGGTACAACGGACCTGGGCTGCAGCATTTTTTTTCACTACAATCGGCAACATAGCACTTTGGCAAACACTATGGATTAATGTAGATGTTCATAATATACATAATCTACTTTTTTTTGCCAGTCTGCCAATATTTCTTTTCTGCTTTCTAAGTATCTTACTTACACCAGTCATGGTTATTCCATATTTATGCAGGCCTCTACTTGTAGTTCTTATTCTAATCAGTGCCTGCTGTAGTTATTTCATGATGAAATACAACATATTAATTGACCGCAGCATGGTGCAAAACTTTTTTGAGACTAATCAGGCTGAATTAACATCATACTTATCCGTTCCTTTTCTTTCCACTCTATTTCTACTTGGCATTGTACCAGCAATTATCCTGGCGTTGCCTTCAACAGACAATAAGCGGGGAGCTTTTAGAATTGAATTGTGGTGGTTGGCGCATATTTGCATAGCTGTAGTCTTATTAGCCATGGTTACCATGGTGTTTTATAAGGATTACGCATCTCTCATACGAAACAATATGCAGATTAAAGACCAGGCTTTACCTTTTAACTTTGTGCGTAATACGAATGGTTACCTTAAAAGAAAATACCAGGCATCTTCAACAATTCTACAAAGCGTGGGGGAGGATGCTGTACGTCCAATATATTCAAATGCTCCACCGAAACTGGTGGTTGTCGTCGTGGGCGAAACCGCCAGAGCACAGAATTTCCAGCTGAATGGCTATTCGCGGGTAACCAACCCCTATCTTTCCAGACGACATGATGTTATCAGTTTCAAAAATGTGTCGTCATGCGGAACGGCTACCGCAATATCACTACCCTGCATGTTCTCGCGAATGTCACGTAACGAATACAATGAAGTCCGTGCCGCATCAGAAGAAAACTTGCTGGATATCCTTAAACGTACAGGTGTTGAGGTGCTATGGCGCAACAATAACAATGGTGGTTGTAAGGGAATCTGCAAGCGAGTACCCACAGATGATATGCCGGCAATGAAAGTAATTGGGGAATGTGTTAACAAAGATGGTACATGCTTTGATGAGGTGTTATTAAATCAACTCTCATCCCGAATTAATGCAATGCAGGGTGATGCGCTTATTGTTTTACATCAAATGGGCAGTCATGGACCAACATATTTTGAACGTTATCCGTCTACAAGTAAAGTCTTTAGCCCAACTTGCGACAGCAACCTGATCGAAAAATGCTCAAATAAAGAACTGGTCAATACATACGACAATACGCTAGTTTATACTGATCGTATGCTGAGCAAAACTATTGAACTGTTGCAACGTTATTCCGGGATGCGTGACGTTGCTATGATATATCTTTCTGATCATGGAGAATCGCTGGGGGAAAGCGGAATATATCTTCATGGCACACCATATATTATTGCCCCCAATGAACAAACACACATCCCGATGTTTATGTGGTTTTCGTCTTCATTCGCGCAGCATTCCAAATTAAATCTAGAATGCCTGACCGGTAATGCCGACAAACAATACAGTCATGATAATTTTTATCATTCAATACTTGGTCTCTTCAACGTAAAAACCAGTGTATATAAACCGGAGTTAGATATGTTTACTCTATGTCGACAATCTGACCACACACCACTGTCTTCCGCAGTTGTAAGAGAGAAAACAGATGGGAATGGTTAG", "fmax": "52152", "accession": "MG736312.1", "fmin": "50454", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}, "protein_sequence": {"accession": "AVX52225.1", "sequence": "MFKYLLSFKLNPVQRTWAAAFFFTTIGNIALWQTLWINVDVHNIHNLLFFASLPIFLFCFLSILLTPVMVIPYLCRPLLVVLILISACCSYFMMKYNILIDRSMVQNFFETNQAELTSYLSVPFLSTLFLLGIVPAIILALPSTDNKRGAFRIELWWLAHICIAVVLLAMVTMVFYKDYASLIRNNMQIKDQALPFNFVRNTNGYLKRKYQASSTILQSVGEDAVRPIYSNAPPKLVVVVVGETARAQNFQLNGYSRVTNPYLSRRHDVISFKNVSSCGTATAISLPCMFSRMSRNEYNEVRAASEENLLDILKRTGVEVLWRNNNNGGCKGICKRVPTDDMPAMKVIGECVNKDGTCFDEVLLNQLSSRINAMQGDALIVLHQMGSHGPTYFERYPSTSKVFSPTCDSNLIEKCSNKELVNTYDNTLVYTDRMLSKTIELLQRYSGMRDVAMIYLSDHGESLGESGIYLHGTPYIIAPNEQTHIPMFMWFSSSFAQHSKLNLECLTGNADKQYSHDNFYHSILGLFNVKTSVYKPELDMFTLCRQSDHTPLSSAVVREKTDGNG"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-8", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42225", "model_name": "MCR-8", "model_type_id": "40292"}, "3145": {"model_id": "3145", "ARO_accession": "3004517", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A novel plasmid-mediated colistin-resistant phosphoethanolamine transferase identified from a poultry isolate of Klebsiella pneumoniae", "model_sequences": {"sequence": {"5003": {"dna_sequence": {"partial": "0", "sequence": "ATGCGCATCACGCTCGGTGTGATGAAGGTGAATTTGTTGCTGGTGCTCTTTTTCGCACTGGTGCTGAACTGGCCTTTCTTTCTTCGTTTTTATTCTGTTATCAGTGGTCTGGAACATGTCCGGGCCGGTTTCGTTATCTCGGTTCCTCTGGTGCTGCTTGCCGCACTCAACGCCGTCTTTATCCCCTTTACCTTCCGCTGGTTGCTCAAGCCCTTCTTTTCGTTGTTGATCCTGACAGGCTCCATCGTCAGTTACGCCATGCTCAAATACGGCGTCATCTTCGATGCCAGCATGATCCAGAACATAGTGGAGACCAACAACAGTGAGGCGACCTCCTACCTGAATGTGCCGGTCGTGCTCTGGTTCCTGCTGACCGGTGTGTTGCCCATGGTGGTGCTCTGGTCGCTGAAGGTGCGCTATCCGGCAAACTGGTACAAGGGGCTGGCCATCAGGGCTGGTGCTCTGGCCTTCTCGCTGCTGTTCGTGGGAGGCGTTGCCGCACTTTACTATCAGGATTACGTCTCGATCGGCCGCAATCACCGGATCCTGGGCAAGCAGATAGTGCCGGCCAACTATGTCAACGGCATCTACAAATATGCCCGCGACGTGGTATTTGCTACCCCCATCCCTTATCAACCGCTGGGGACTGATGCCAAAGTCGTCGCCAAAGGGGATAAACCGACCCTGATGTTTCTGGTGGTGGGGGAGACAGCCCGCGGCAAGAACTTCTCGATGAACGGCTACGAGAAAGAGACCAACCCCTTTACCAGTCAGGCCGGGGGCGTGATCTCCTTCAAGGACGTGCGCTCTTGCGGCACGGCCACAGCGGTGTCGGTGCCCTGCATGTTCTCCAACATGGGGCGCAAGGAGTTTGATGACAACCGGGCCCGCAACAGCGAAGGCCTGCTCGATGTGCTGCAAAGAAGCGGGGTCTCCATCTTCTGGAAGGAGAACGACGGCGGCTGCAAAGGGGTGTGCGATCGGGTGCCCAACATCGAGATCAAGCCAAAAGATCACCCACAGTTCTGCGACAAGAACACCTGCTATGACGAGGTTGTACTGCAAAATCTCGACGACGAGGTGGCGCAGATGAAGGGCGACAAGCTGGTCGGTTTCCATCTGATCGGCAGCCACCGCCCGCCCTACCACCAACGCTATCCGGACAAACCACCCCCGTTCGTACCGGACTGCCCGCGCAGCGACATCGAGAACTGCAGCGATGAAGAGCTGGTCAACACCTATGACAACACCATCCGCTACACCGATTTTGTCATAGCAGAGATGATTACCAAGCTGAAAAAGTATGAAGATAAGTACAACACGGCGTTGATCTACCTCTCTGATCACGGCGAGTCGCTGGGTGCGATGGGGCTCTATCTGCATGGCACGCCCTACAAGTTTGCCCCTGACGACCAGACCCGGGTACCGATGCAGGTCTGGATGTCGCCGGGCTTTGCCAAAGAGAAGGGGATGGATCTGAACTGCCTGCAGCAAAAAGCGGCAGACAATCGCTACTCCCATGACAACCTCTTCTCCTCTGTGCTCGGGATCTGGGATGTCAGCACGGCGGTGTACGACAAGCAGCTCGATATTTTCAGCCAGTGCCGCACCGTGCAGTAA", "fmax": "25229", "accession": "MG267386.1", "fmin": "23609", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}, "protein_sequence": {"accession": "AUR80098.1", "sequence": "MRITLGVMKVNLLLVLFFALVLNWPFFLRFYSVISGLEHVRAGFVISVPLVLLAALNAVFIPFTFRWLLKPFFSLLILTGSIVSYAMLKYGVIFDASMIQNIVETNNSEATSYLNVPVVLWFLLTGVLPMVVLWSLKVRYPANWYKGLAIRAGALAFSLLFVGGVAALYYQDYVSIGRNHRILGKQIVPANYVNGIYKYARDVVFATPIPYQPLGTDAKVVAKGDKPTLMFLVVGETARGKNFSMNGYEKETNPFTSQAGGVISFKDVRSCGTATAVSVPCMFSNMGRKEFDDNRARNSEGLLDVLQRSGVSIFWKENDGGCKGVCDRVPNIEIKPKDHPQFCDKNTCYDEVVLQNLDDEVAQMKGDKLVGFHLIGSHRPPYHQRYPDKPPPFVPDCPRSDIENCSDEELVNTYDNTIRYTDFVIAEMITKLKKYEDKYNTALIYLSDHGESLGAMGLYLHGTPYKFAPDDQTRVPMQVWMSPGFAKEKGMDLNCLQQKAADNRYSHDNLFSSVLGIWDVSTAVYDKQLDIFSQCRTVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-7.1", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42226", "model_name": "MCR-7.1", "model_type_id": "40292"}, "3216": {"model_id": "3216", "ARO_accession": "3004539", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A chromosomal macrolide 2'-phosphotransferase and resistance gene identified from a Brachybacterium faecium cave isolate", "model_sequences": {"sequence": {"5080": {"dna_sequence": {"partial": "0", "sequence": "ATGCCCGAGGACCTGGACGCACTGCTGGACCTCGCCGCCCGTCACGGCCTCGACCTCGACGGCGGCACGCTGCGCACCGAGGAGATCGGGCTGGACTTCCGGGTCGCATTCGCCCGCGCGCACGACGGCGGCGACTGGGTGCTGCGCCTCCCCCGCCGGCCCGACGTGCTCGAGCGCGCCGCGGTCGAGGGCCGGCTGCTGGCGATGCTCGCCCCGCACCTCGATGTCGCGGTGCCGGACTGGCGCATCAGCACCTCCGAGCTGATCGCCTACCCGCTGCTGCCGGGCAGTCCGGGGCTCACCGTCGCTGCGGACGGCGAGGTCTCCTGGCACGTCGACATGGCCTCGACCGTCTACGCCCGCTCCCTCGGGAGCGTGGTCGCGCAGCTGCATGCCGTGGATGCCGAGGCGGCCGCCGCCACCGGCATCGAGGTGCGCTCCCCCGCACAGGTGCGCGGGGCGTGGCGGCAGGACCTCGCACGCGTGGGCGCGGAGTTCGAGATCGCCCCGGCGCTGCGGGAGCGCTGGGAGGCCTGGCTCGCGGACGACGGCTGCTGGCCCGGGCACAGCGTGCTCACCCATGGCGAGCTCTATCCGGCCCACACCCTCGTCGAGGACGAGCGGATCACGGCAGTGCTCGACTGGACCACCGCCGCGGTGGGCGATCCCGCCAAGGACCTCATGTTCCACCAGGTCAGCGCCCCGTCGGCGATCTTCGAGGTGGCGCTGCAGGCGTACGCCGAGGGCGGCGGCCGCCCCTGGCCGGGGCTGGCACGGCACTGCACCGAGATGTTCTCCGCCGCGCCGCTGGGCTACGGGCTGTACGCGCTGGCCACCGGGGAGGCCGCTCATCGGGAGGCCGCCGCCGCGGCGCTGAACCCGCCCGAGGAGCGCTGA", "fmax": "2517609", "accession": "NC_013172.1", "fmin": "2516712", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Brachybacterium faecium", "NCBI_taxonomy_id": "43669", "NCBI_taxonomy_cvterm_id": "42410"}, "protein_sequence": {"accession": "WP_015776248.1", "sequence": "MPEDLDALLDLAARHGLDLDGGTLRTEEIGLDFRVAFARAHDGGDWVLRLPRRPDVLERAAVEGRLLAMLAPHLDVAVPDWRISTSELIAYPLLPGSPGLTVAADGEVSWHVDMASTVYARSLGSVVAQLHAVDAEAAAATGIEVRSPAQVRGAWRQDLARVGAEFEIAPALRERWEAWLADDGCWPGHSVLTHGELYPAHTLVEDERITAVLDWTTAAVGDPAKDLMFHQVSAPSAIFEVALQAYAEGGGRPWPGLARHCTEMFSAAPLGYGLYALATGEAAHREAAAAALNPPEER"}}}}, "ARO_category": {"36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "36472": {"category_aro_name": "macrolide phosphotransferase (MPH)", "category_aro_cvterm_id": "36472", "category_aro_accession": "3000333", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Macrolide phosphotransferases (MPH) are enzymes encoded by macrolide phosphotransferase genes (mph genes). These enzymes phosphorylate macrolides in GTP dependent manner at 2'-OH of desosamine sugar thereby inactivating them. Characterized MPH's are differentiated based on their substrate specificity."}, "35919": {"category_aro_name": "macrolide antibiotic", "category_aro_cvterm_id": "35919", "category_aro_accession": "0000000", "category_aro_class_name": "Drug Class", "category_aro_description": "Macrolides are a group of drugs (typically antibiotics) that have a large macrocyclic lactone ring of 12-16 carbons to which one or more deoxy sugars, usually cladinose and desosamine, may be attached. Macrolides bind to the 50S-subunit of bacterial ribosomes, inhibiting the synthesis of vital proteins."}}, "ARO_name": "mphH", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42409", "model_name": "mphH", "model_type_id": "40292"}, "3129": {"model_id": "3129", "ARO_accession": "3004501", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-2 phosphoethanolamine transferase and polymyxin resistance gene variant identified in Moraxella isolated from pigs in the United Kingdom.", "model_sequences": {"sequence": {"4987": {"dna_sequence": {"partial": "0", "sequence": "ATGACACAGCATAGTCCTTGGTACCGCCGTCCGGTCAATCCCTATCTGTTGATGAGCGTGGTCGCTTTATTTTTGTCAGCGACAGCAAACCTAACTTTCTTTGATAAAATCACCAATACTTATCCGATGGCACAAAACGCAGGCTTTGTGATCTCAACGGCGCTTGTGCTATTTGGGGCGATGCTATTGATTACTGTGCTGTTATCGTATCGCTATGTGCTTAAGCCTGTGTTGATTTTGCTGCTTATCATGGGTGCGGTGACGAGCTATTTTACCGATACTTATGGCACCGTTTATGACACCACCATGCTCCAAAATGCCTTGCAAACTGACCAAGCCGAGTCTAAGGACTTGATGAATATGGCGTTTTTTGTGCGGATTATCGGGCTTGGCGTGTTGCCAAGTATCTTGGTGGCGTGGGTCAAGGTGGATTATCCGACATTGGGTAAGAGTCTGATTCAGCGTGCGATGACTTGGGGTGTGGCAGTGGTGATGGCACTTGTGCCGATTTTGGCATTTAGTAGTCACTACGCCAGTTTCTTTCGTGAACATAAGCCACTGCGTAGCTATGTCAATCCCGTGATGCCGATTTATTCAGTAGGTAAGCTTGCCAGTATTGAGTACAAAAAAGCCACCGCGCCAAAAGACACCATCTATCATGCCAAAGATGCTGTACAGACGACGACGCCTGCCGAGCGTAAGCCACGACTCGTGGTGTTCGTCGTCGGTGAGACGGCTCGAGCTGACCATGTGCAGTTTAATGGCTATAGTCGTGAGACTTTTCCGCAGCTTGCCAAGATTGACAACCTAGCCAATTTTAGCCAAGTGACATCGTGTGGCACATCGACGGCGTACTCTGTGCCGTGTATGTTCAGTTATCTGGGTCAAGATGACTATGATGTCGATACCGCCAAATACCAAGAAAACGTGCTGGATACGCTTGACCGACTGGGTGTGGGTATCCTGTGGCGGGATAATAATTCAGACTCAAAAGGCGTGATGGATAAACTGCCTGCTTCGCAGTATTTTGATTATAAATCAGCGACCAACAACACCATCTGTAACACCAATCCTTACAACGAATGTCGTGATGTCGGTATGTTGGTGGGGCTAGATGATTATGTGAGTACCAATCAAGGCAAAGATATGCTCATCATGCTACACCAAATGGGTAATCATGGGCCGGCGTACTTCAAGCGTTATGACGAGCAATTTGCCAAATACACCCCTGTGTGCGAAGGTAATGAACTTGCCAAGTGTGAACACCAATCGCTCATCAACGCCTATGATAATGCACTGCTTGCGACCGATGATTTTATCGCCAAAAGTATCGATTGGCTAAAAACGCATCAGGCCAACTATGATGTTGCCATGCTCTATGTCAGCGACCACGGCGAGAGTCTGGGTGAAAATGGCGTCTATCTGCATGGTATGCCAAATGCCTTTGCACCAAAAGAACAGCGAGCGGTACCGGCATTCTTTTGGTCAAATAATCCATCGTTCACGCCAACTGCCAGCGACACTGTGCTGACACATGATGCGATTACGCCGACTCTACTGAAGCTGTTTGATGTCACAGCGGATAAGGTCAAAGACCGCACCGCATTCATCCGCTGA", "fmax": "1617", "accession": "NG_055781.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Moraxella sp. MSG47-C17", "NCBI_taxonomy_id": "1935434", "NCBI_taxonomy_cvterm_id": "42207"}, "protein_sequence": {"accession": "WP_099982813.1", "sequence": "MTQHSPWYRRPVNPYLLMSVVALFLSATANLTFFDKITNTYPMAQNAGFVISTALVLFGAMLLITVLLSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAESKDLMNMAFFVRIIGLGVLPSILVAWVKVDYPTLGKSLIQRAMTWGVAVVMALVPILAFSSHYASFFREHKPLRSYVNPVMPIYSVGKLASIEYKKATAPKDTIYHAKDAVQTTTPAERKPRLVVFVVGETARADHVQFNGYSRETFPQLAKIDNLANFSQVTSCGTSTAYSVPCMFSYLGQDDYDVDTAKYQENVLDTLDRLGVGILWRDNNSDSKGVMDKLPASQYFDYKSATNNTICNTNPYNECRDVGMLVGLDDYVSTNQGKDMLIMLHQMGNHGPAYFKRYDEQFAKYTPVCEGNELAKCEHQSLINAYDNALLATDDFIAKSIDWLKTHQANYDVAMLYVSDHGESLGENGVYLHGMPNAFAPKEQRAVPAFFWSNNPSFTPTASDTVLTHDAITPTLLKLFDVTADKVKDRTAFIR"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-6.1", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42206", "model_name": "MCR-6.1", "model_type_id": "40292"}, "3252": {"model_id": "3252", "ARO_accession": "3004546", "model_param": {"blastn_bit_score": {"param_value": "5000", "param_type_id": "41093", "param_type": "BLASTN bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. This parameter is used by AMR detection models without a protein reference sequence but including a nucleotide reference sequence, e.g. the rRNA gene variant model. The BLASTN bit-score parameter is a curated value determined from BLASTN analysis of the canonical nucleotide reference sequence of a specific AMR-associated gene against the database of CARD reference sequences. This value establishes a threshold for computational prediction of a specific gene amongst a batch of submitted sequences."}, "snp": {"param_type": "single resistance variant", "param_value": {"8567": "A2074C", "8568": "A2075G"}, "clinical": {"8567": "A2074C", "8568": "A2075G"}, "param_type_id": "36301", "param_description": "A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences."}}, "ARO_description": "Point mutations in the 23S ribosomal RNA domain of Campylobacter jejuni which confer resistance to macrolide antibiotics, including erythromycin.", "model_sequences": {"sequence": {"5105": {"dna_sequence": {"partial": "0", "sequence": "AGCTACTAAGAGCGAATGGTGGATGCCTTGACTGGTAAAGGCGATGAAGGACGTACTAGACTGCGATAAGCTACGGGGAGCTGTCAAGAAGCTTTGATCCGTAGATTTCCGAATGGGGCAACCCAATGTATAGAGATATACATTACCTATATAGGAGCGAACGAGGGGAATTGAAACATCTTAGTACCCTCAGGAAAAGAAATCAATAGAGATTGCGTCAGTAGCGGCGAGCGAAAGCGCAAGAGGGCAAACCCAGTGCTTGCACTGGGGGTTGTAGGACTGCAATGTGCAAGAGCTGAGTTTAGCAGAACATTCTGGAAAGTATAGCCATAGAGGGTGATAGTCCCGTATGCGAAAAACAAAGCTTAGCTAGCAGTATCCTGAGTAGGGCGGGACACGAGGAATCCTGTCTGAATCCGGGTCGACCACGATCCAACCCTAAATACTAATACCAGATCGATAGTGCACAAGTACCGTGAGGGAAAGGTGAAAAGAACTGAGGTGATCAGAGTGAAATAGAACCTGAAACCATTTGCTTACAATCATTCAGAGCACTATGTAGCAATACAGTGTGATGGACTGCCTTTTGCATAATGAGCCTGCGAGTTGTGGTGTCTGGCAAGGTTAAGCAAACGCGAAGCCGTAGCGAAAGCGAGTCTGAATAGGGCGCTTAGTCAGATGCTGCAGACCCGAAACGAAGTGATCTATCCATGAGCAAGTTGAAGCTAGTGTAAGAACTAGTGGAGGACTGAACCCATAGGCGTTGAAAAGCCCCGGGATGACTTGTGGATAGGGGTGAAAGGCCAATCAAACTTCGTGATAGCTGGTTCTCTCCGAAATATATTTAGGTATAGCGTTGTGTCGTAATATAAGGGGGTAGAGCACTGAATGGGCTAGGGCATACACCAATGTACCAAACCCTATCAAACTCCGAATACCTTATATGTAATCACAGCAGTCAGGCGGCGAGTGATAAAATCCGTCGTCAAGAGGGAAACAACCCAGACTACCAGCTAAGGTCCCTAAATCTTACTTAAGTGGAAAACGATGTGAAGTTACTTAAACAACCAGGAGGTTGGCTTAGAAGCAGCCATCCTTTAAAGAAAGCGTAATAGCTCACTGGTCTAGTGATTTTGCGCGGAAAATATAACGGGGCTAAAGTAAGTACCGAAGCTGTAGACTTAGTTTACTAAGTGGTAGGAGAGCGTTCTATTTGCGTCGAAGGTATACCGGTAAGGAGTGCTGGAGCGAATAGAAGTGAGCATGCAGGCATGAGTAGCGATAATTAATGTGAGAATCATTAACGCCGTAAACCCAAGGTTTCCTACGCGATGCTCGTCATCGTAGGGTTAGTCGGGTCCTAAGTCGAGTCCGAAAGGGGTAGACGATGGCAAATTGGTTAATATTCCAATACCAACATTAGTGTGCGATGGAAGGACGCTTAGGGCTAAGGGGGCTAGCGGATGGAAGTGCTAGTCTAAGGTCGTAGGAGGTTATACAGGCAAATCCGTATAACAATACTCCGAGAACTGAAAGGCTTTTTGAAGTCTTCGGATGGATAGAAGAACCCCTGATGCCGTCGAGCCAAGAAAAGTTTCTAAGTTTAGCTAATGTTGCCCGTACCGTAAACCGACACAGGTGGGTGGGATGAGTATTCTAAGGCGCGTGGAAGAACTCTCTTTAAGGAACTCTGCAAAATAGCACCGTATCTTCGGTATAAGGTGTGGTTAGCTTTGTATTAGGATTTACTCTGAAAGCAAGGAAACTTACAACAAAGAGTCCCTCCCGACTGTTTACCAAAAACACAGCACTCTGCTAACTCGTAAGAGGATGTATAGGGTGTGACGCCTGCCCGGTGCTCGAAGGTTAATTGATGGGGTTAGCATTAGCGAAGCTCTTGATCGAAGCCCGAGTAAACGGCGGCCGTAACTATAACGGTCCTAAGGTAGCGAAATTCCTTGTCGGTTAAATACCGACCTGCATGAATGGCGTAACGAGATGGGAGCTGTCTCAAAGAGGGATCCAGTGAAATTGTAGTGGAGGTGAAAATTCCTCCTACCCGCGGCAAGACGGAAAGACCCCGTGGACCTTTACTACAGCTTGACACTGCTACTTGGATAAGAATGTGCAGGATAGGTGGGAGGCTTTGAGTATATGACGCCAGTTGTATATGAGCCATTGTTGAGATACCACTCTTTCTTATTTGGGTAGCTAACCAGCTTGAGTTATCCTCAAGTGGGACAATGTCTGGTGGGTAGTTTGACTGGGGCGGTCGCCTCCCAAATAATAACGGAGGCTTACAAAGGTTGGCTCAGAACGGTTGGAAATCGTTCGTAGAGTATAAAGGTATAAGCCAGCTTAACTGCAAGACATACAAGTCAAGCAGAGACGAAAGTCGGTCTTAGTGATCCGGTGGTTCTGTGTGGAAGGGCCATCGCTCAAAGGATAAAAGGTACCCCGGGGATAACAGGCTGATCTCCCCCAAGAGCTCACATCGACGGGGAGGTTTGGCACCTCGATGTCGGCTCATCGCATCCTGGGGCTGGAGCAGGTCCCAAGGGTATGGCTGTTCGCCATTTAAAGCGGTACGCGAGCTGGGTTCAGAACGTCGTGAGACAGTTCGGTCCCTATCTGCCGTGGGCGTAAGAAGATTGAAGAGATTTGACCCTAGTACGAGAGGACCGGGTTGAACAAACCACTGGTGTAGCTGTTGTTCTGCCAAGAGCATCGCAGCGTAGCTAAGTTTGGAAAGGATAAACGCTGAAAGCATCTAAGCGTGAAGCCAACTCTAAGATGAATCTTCTCTAAGCTCTCTAGAAGACTACTAGTTTGATAGGCTGGGTGTGTAATGGATGAAAGTCCTTTAGCTGACCAGTACTAATAGAGCGTTTGGCTTATCTTTAATAAAGCAT", "fmax": "2912", "accession": "NR_076226.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Campylobacter jejuni subsp. jejuni", "NCBI_taxonomy_id": "32022", "NCBI_taxonomy_cvterm_id": "39578"}, "protein_sequence": {"accession": "", "sequence": ""}}}}, "ARO_category": {"35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36220": {"category_aro_name": "glycopeptide antibiotic", "category_aro_cvterm_id": "36220", "category_aro_accession": "3000081", "category_aro_class_name": "Drug Class", "category_aro_description": "Glycopeptide antibiotics are natural products produced non-ribosomally by Actinomycetales bacteria. With the exception of bleomycins, they act by binding the terminal D-Ala-D-Ala in peptidoglycan precursors of the growing bacterial cell wall and are generally active against Gram-positive bacteria.  This inhibits transglycosylation leading to cell death due to osmotic stress."}, "37021": {"category_aro_name": "virginiamycin S2", "category_aro_cvterm_id": "37021", "category_aro_accession": "3000677", "category_aro_class_name": "Antibiotic", "category_aro_description": "Virginiamycin S2 is a streptogramin B antibiotic."}, "37023": {"category_aro_name": "vernamycin C", "category_aro_cvterm_id": "37023", "category_aro_accession": "3000679", "category_aro_class_name": "Antibiotic", "category_aro_description": "Vernamycin C is a streptogramin B antibiotic."}, "37022": {"category_aro_name": "vernamycin B-gamma", "category_aro_cvterm_id": "37022", "category_aro_accession": "3000678", "category_aro_class_name": "Antibiotic", "category_aro_description": "Vernamycin B-gamma is a class B streptogramin derived from virginiamycin S1."}, "37026": {"category_aro_name": "ostreogrycin B3", "category_aro_cvterm_id": "37026", "category_aro_accession": "3000682", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ostreogrycin B3 is a derivative of pristinamycin IA, with an additional 3-hydroxy group on its 4-oxopipecolic acid."}, "35919": {"category_aro_name": "macrolide antibiotic", "category_aro_cvterm_id": "35919", "category_aro_accession": "0000000", "category_aro_class_name": "Drug Class", "category_aro_description": "Macrolides are a group of drugs (typically antibiotics) that have a large macrocyclic lactone ring of 12-16 carbons to which one or more deoxy sugars, usually cladinose and desosamine, may be attached. Macrolides bind to the 50S-subunit of bacterial ribosomes, inhibiting the synthesis of vital proteins."}, "36600": {"category_aro_name": "florfenicol", "category_aro_cvterm_id": "36600", "category_aro_accession": "3000461", "category_aro_class_name": "Antibiotic", "category_aro_description": "Florfenicol is a fluorine derivative of chloramphenicol, where the nitro group (-NO2) is substituted by a sulfomethyl group (-SO2CH3) and the hydroxyl group (-OH), by a fluorine group (-F). The action mechanism is the same as chloramphenicol's, where the antibiotic binds to the 23S RNA of the 50S subunit of bacterial ribosomes to inhibit protein synthesis."}, "35936": {"category_aro_name": "lincosamide antibiotic", "category_aro_cvterm_id": "35936", "category_aro_accession": "0000017", "category_aro_class_name": "Drug Class", "category_aro_description": "Lincosamides (e.g. lincomycin, clindamycin) are a class of drugs which bind to the 23s portion of the 50S subunit of bacterial ribosomes. This interaction inhibits early elongation of peptide chains by inhibiting the transpeptidase reaction, acting similarly to macrolides."}, "36595": {"category_aro_name": "thiamphenicol", "category_aro_cvterm_id": "36595", "category_aro_accession": "3000456", "category_aro_class_name": "Antibiotic", "category_aro_description": "Derivative of Chloramphenicol. The nitro group (-NO2) is substituted by a sulfomethyl group (-SO2CH3)."}, "41251": {"category_aro_name": "23S rRNA with mutation conferring resistance to macrolide antibiotics", "category_aro_cvterm_id": "41251", "category_aro_accession": "3004125", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nucleotide point mutations in the 23S rRNA subunit may confer resistance to macrolide antibiotics."}, "35983": {"category_aro_name": "clindamycin", "category_aro_cvterm_id": "35983", "category_aro_accession": "0000066", "category_aro_class_name": "Antibiotic", "category_aro_description": "Clindamycin is a lincosamide antibiotic that blocks A-site aminoacyl-tRNA binding. It is usually used to treat infections with anaerobic bacteria but can also be used to treat some protozoal diseases, such as malaria."}, "37018": {"category_aro_name": "dalfopristin", "category_aro_cvterm_id": "37018", "category_aro_accession": "3000674", "category_aro_class_name": "Antibiotic", "category_aro_description": "Dalfopristin is a water-soluble semi-synthetic derivative of pristinamycin IIA. It is produced by Streptomyces pristinaespiralis and is used in combination with quinupristin in a 7:3 ratio. Both work together to inhibit protein synthesis, and is active against Gram-positive bacteria."}, "37019": {"category_aro_name": "pristinamycin IB", "category_aro_cvterm_id": "37019", "category_aro_accession": "3000675", "category_aro_class_name": "Antibiotic", "category_aro_description": "Pristinamycin IB is a class B streptogramin similar to pristinamycin IA, the former containing a N-methyl-4-(methylamino)phenylalanine instead of a N-methyl-4-(dimethylamino)phenylalanine in its class A streptogramin counterpart (one less methyl group)."}, "36723": {"category_aro_name": "quinupristin", "category_aro_cvterm_id": "36723", "category_aro_accession": "3000584", "category_aro_class_name": "Antibiotic", "category_aro_description": "Quinupristin is a type B streptogramin and a semisynthetic derivative of pristinamycin 1A. It is a component of the drug Synercid and interacts with the 50S subunit of the bacterial ribosome to inhibit protein synthesis."}, "36722": {"category_aro_name": "pristinamycin IA", "category_aro_cvterm_id": "36722", "category_aro_accession": "3000583", "category_aro_class_name": "Antibiotic", "category_aro_description": "Pristinamycin 1A is a type B streptogramin antibiotic produced by Streptomyces pristinaespiralis. It binds to the P site of the 50S subunit of the bacterial ribosome, preventing the extension of protein chains."}, "37036": {"category_aro_name": "bleomycin B2", "category_aro_cvterm_id": "37036", "category_aro_accession": "3000692", "category_aro_class_name": "Antibiotic", "category_aro_description": "Bleomycin B2 is a glycopeptide antibiotic produced by Streptomyces verticillus taken as a mixture of bleomycins. It induces stand breaks in bacterial nucleic acids."}, "37034": {"category_aro_name": "bleomycinic acid", "category_aro_cvterm_id": "37034", "category_aro_accession": "3000690", "category_aro_class_name": "Antibiotic", "category_aro_description": "Bleomycinic acid is a glycopeptide antibiotic produced by Streptomyces verticillus taken as a mixture of bleomycins. It induces stand breaks in bacterial nucleic acids."}, "37035": {"category_aro_name": "bleomycin A2", "category_aro_cvterm_id": "37035", "category_aro_accession": "3000691", "category_aro_class_name": "Antibiotic", "category_aro_description": "Bleomycin A2 is a glycopeptide antibiotic produced by Streptomyces verticillus taken as a mixture of bleomycins. It induces stand breaks in bacterial nucleic acids."}, "37013": {"category_aro_name": "pristinamycin IIA", "category_aro_cvterm_id": "37013", "category_aro_accession": "3000669", "category_aro_class_name": "Antibiotic", "category_aro_description": "Pristinamycin IIA is a streptogramin A antibiotic."}, "37014": {"category_aro_name": "pleuromutilin antibiotic", "category_aro_cvterm_id": "37014", "category_aro_accession": "3000670", "category_aro_class_name": "Drug Class", "category_aro_description": "Pleuromutilins are natural fungal products that target bacterial protein translation by binding the the 23S rRNA, blocking the ribosome P site at the 50S subunit. They are mostly used for agriculture and veterinary purposes."}, "37016": {"category_aro_name": "madumycin II", "category_aro_cvterm_id": "37016", "category_aro_accession": "3000672", "category_aro_class_name": "Antibiotic", "category_aro_description": "Madumycin II is a streptogramin A antibiotic."}, "37017": {"category_aro_name": "griseoviridin", "category_aro_cvterm_id": "37017", "category_aro_accession": "3000673", "category_aro_class_name": "Antibiotic", "category_aro_description": "Griseoviridin is a streptogramin A antibiotic."}, "35964": {"category_aro_name": "lincomycin", "category_aro_cvterm_id": "35964", "category_aro_accession": "0000046", "category_aro_class_name": "Antibiotic", "category_aro_description": "Lincomycin is a lincosamide antibiotic that comes from the actinomyces Streptomyces lincolnensis. It binds to the 23s portion of the 50S subunit of bacterial ribosomes and inhibit early elongation of peptide chain by inhibiting transpeptidase reaction."}, "35945": {"category_aro_name": "streptogramin antibiotic", "category_aro_cvterm_id": "35945", "category_aro_accession": "0000026", "category_aro_class_name": "Drug Class", "category_aro_description": "Streptogramin antibiotics are natural products produced by various members of the Streptomyces genus. These antibiotics bind to the P site of the 50S subunit of bacterial ribosomes to inhibit protein synthesis. The family consists of two subgroups, type A and type B, which are simultaneously produced by the same bacterial species in a ratio of roughly 70:30."}, "36521": {"category_aro_name": "azidamfenicol", "category_aro_cvterm_id": "36521", "category_aro_accession": "3000382", "category_aro_class_name": "Antibiotic", "category_aro_description": "Azidamfenicol is a water soluble derivative of chloramphenicol, sharing the same mode of action of inhibiting peptide synthesis by interacting with the 23S RNA of the 50S ribosomal subunit."}, "35925": {"category_aro_name": "erythromycin", "category_aro_cvterm_id": "35925", "category_aro_accession": "0000006", "category_aro_class_name": "Antibiotic", "category_aro_description": "Erythromycin is a macrolide antibiotic with a 14-carbon ring that has an antimicrobial spectrum similar to or slightly wider than that of penicillin, and is often used for people that have an allergy to penicillins. Erythromycin may possess bacteriocidal activity, particularly at higher concentrations by binding to the 50S subunit of the bacterial 70S rRNA complex, inhibiting peptidyl-tRNA translocation. Thus, protein synthesis and subsequently structure/function processes critical for life or replication are inhibited."}, "36526": {"category_aro_name": "phenicol antibiotic", "category_aro_cvterm_id": "36526", "category_aro_accession": "3000387", "category_aro_class_name": "Drug Class", "category_aro_description": "Phenicols are broad spectrum bacteriostatic antibiotics acting on bacterial protein synthesis. More specifically, the phenicols block peptide elongation by binding to the peptidyltansferase centre of the 70S ribosome."}, "36524": {"category_aro_name": "chloramphenicol", "category_aro_cvterm_id": "36524", "category_aro_accession": "3000385", "category_aro_class_name": "Antibiotic", "category_aro_description": "Chloramphenicol is a bacteriostatic antimicrobial originally derived from the bacterium Streptomyces venezuelae. It was the first antibiotic to be manufactured synthetically on a large scale. It functions by inhibiting peptidyl transferase activity of the bacterial ribosome, binding to A2451 and A2452 residues in the 23S rRNA of the 50S ribosomal subunit and preventing peptide bond formation."}}, "ARO_name": "Campylobacter jejuni 23S rRNA with mutation conferring resistance to erythromycin", "model_type": "rRNA gene variant model", "model_description": "The rRNA gene variant model is an AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown clinically to confer resistance to known antibiotic(s) relative to the wild-type rRNA sequence. Like the protein variant model, rRNA gene variant models detect the presence of an rRNA sequence based on its homolog, and then secondarily search submitted query sequences for a curated mutation. This model includes an rRNA gene reference sequence, a BLASTN bitscore cutoff, and a set of mapped resistance variants. A submitted sequence must have both high homolog to the reference sequence and include a known resistance variant to be detected.", "ARO_id": "42445", "model_name": "Campylobacter jejuni 23S rRNA with mutation conferring resistance to erythromycin", "model_type_id": "40295"}, "3024": {"model_id": "3024", "ARO_accession": "3004496", "model_param": {"blastp_bit_score": {"param_value": "600", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A KPC class A beta-lactamase and carbapenemase identified from Chilean isolates of Klebsiella pneumoniae.", "model_sequences": {"sequence": {"4880": {"dna_sequence": {"partial": "0", "sequence": "ATGTCACTGTATCGCCCTCTAGTTCTGCTGTCTTGTCTCTCATGGCCGCTGGCTGGCTTTTCTGCCACCGCGCTGACCAACCTCGTCGCGGAACCATTCGCTAAACTCGAACAGGACTTTGGCGGCTCCATCGGTGTGTACGCGATGGATACCGGCTCAGGCGCAACTGTAAGTTACCGCGCTGAGGAGCGCTTCCCACTGTGCAGCTCATTCAAGGGCTTTCTTGCTGCCGCTGTGCTGGCTCGCAGCCAGCAGCAGGCCGGCTTGCTGGACACACCCATCCGTTACGGCAAAAATGCGCTGGTTCCGTGGTCACCCATCTCGGAAAAATATCTGACAACAGGCATGACGGTGGCGGAGCTGTCCGCGGCCGCCGTGCAATACAGTGATAACGCCGCCGCCAATTTGTTGCTGAAGGAGTTGGGCGGCCCGGCCGGGCTGACGGCCTTCATGCGCTCTATCGGCGATACCACGTTCCGTCTGGACCGCTGGGAGCTGGAGCTGAACTCCGCCATCCCAGGCGATGCGCGCGATACCTCATCGCCGCGCGCCGTGACGGAAAGCTTACAAAAACTGACACTGGGCTCTGCACTGGCTGCGCCGCAGCGGCAGCAGTTTGTTGATTGGCTAAAGGGAAACACGACCGGCAACCACCGCATCCGCGCGGCGGTGCCGGCAGACTGGGCAGTCGGAGACAAAACCGGAACCTGCGGAGTGTATGGCACGGCAAATGACTATGCCGTCGTCTGGCCCACTGGGCGCGCACCTATTGTGTTGGCCGTCTACACCCGGGCGCCTAACAAGGATGACAAGCACAGCGAGGCCGTCATCGCCGCTGCGGCTAGACTCGCGCTCGAGGGATTGGGCGTCAACGGGCAGTAA", "fmax": "982", "accession": "NG_049256.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}, "protein_sequence": {"accession": "WP_063860729.1", "sequence": "MSLYRPLVLLSCLSWPLAGFSATALTNLVAEPFAKLEQDFGGSIGVYAMDTGSGATVSYRAEERFPLCSSFKGFLAAAVLARSQQQAGLLDTPIRYGKNALVPWSPISEKYLTTGMTVAELSAAAVQYSDNAAANLLLKELGGPAGLTAFMRSIGDTTFRLDRWELELNSAIPGDARDTSSPRAVTESLQKLTLGSALAAPQRQQFVDWLKGNTTGNHRIRAAVPADWAVGDKTGTCGVYGTANDYAVVWPTGRAPIVLAVYTRAPNKDDKHSEAVIAAAARLALEGLGVNGQ"}}}}, "ARO_category": {"36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "35939": {"category_aro_name": "carbapenem", "category_aro_cvterm_id": "35939", "category_aro_accession": "0000020", "category_aro_class_name": "Drug Class", "category_aro_description": "Carbapenems are a class of beta-lactam antibiotics with a broad spectrum of antibacterial activity, and have a structure which renders them highly resistant to beta-lactamases. Carbapenem antibiotics are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "35923": {"category_aro_name": "monobactam", "category_aro_cvterm_id": "35923", "category_aro_accession": "0000004", "category_aro_class_name": "Drug Class", "category_aro_description": "Monobactams are a class of beta-lactam antibiotics with a broad spectrum of antibacterial activity, and have a structure which renders them highly resistant to beta-lactamases. Unlike penams and cephems, monobactams do not have any ring fused to its four-member lactam structure. Monobactam antibiotics are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36198": {"category_aro_name": "KPC beta-lactamase", "category_aro_cvterm_id": "36198", "category_aro_accession": "3000059", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Klebsiella pneumoniae carbapenem resistant (KPC) beta-lactamases are notorious for their ability to efficiently hydrolyze carbapenems, unlike other Ambler Class A beta-lactamases.  There are currently 9 variants reported worldwide.  These enzymes were first isolated from Klebsiella pneumoniae strains in 2001 in the United States.  Hospital outbreaks have since been reported in Greece and Israel and KPC carrying strains are now endemic to New York facilities.  KPC-1 and KPC-2 have been shown to be identical and are now referred to as KPC-2."}}, "ARO_name": "KPC-24", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42038", "model_name": "KPC-24", "model_type_id": "40292"}, "3218": {"model_id": "3218", "ARO_accession": "3004542", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A macrolide phosphotransferase identified on a plasmid in Exiguobacterium", "model_sequences": {"sequence": {"5084": {"dna_sequence": {"partial": "0", "sequence": "ATGAACGAATTTAAACGGCTTGCAAAAAATAAAGGATTAGATGTGTTAGAGAATAGCATTGTGGTAAATGAATCGGGTGTTGATTTTCAAGTTGCTTATGCAAAAGATACGCTTGGTAGCAAGTGGATACTAAGAATTCCTCGAAGATTAGATTCGATGAGGAGCGCCTTGAAAGAAAAGATGGCACTAGAAATTATGGAAGAACATGTGAGTTTTCAAGTTCCAAATTGGTCGATTTTTGATGATGAACTAATTGCGTATAAGCAATTAGATGGTGTTCCGGTTGCAACAATTGATGTAGAGCAACAAGATTACATCTGGAGTTTTGACAAAGAGAATACACCACAATCTTACTATCAGTCATTAGGTAAAGTGTTGGCAGAACTACACACATTACCACATCGACACTTCAAAGAAATCGGTATCAAAACTCTATATGCTAGAGATTTAAAGAGTTCAATGAAGATACGGATGGAGAAGGTGAGACAGAAGTATCATGTGAATTCAGAGCTATGGGAGCGTTGGCAAGAATGGTTGGCGAATGATTCGCTATGGCCATCGCATGTAGGTGTAAGCCACGGGGATTTACACCCTGGCCACATACTAATAAATAAGAATTTTGAGGTCTCTGGTTTGATAGATTGGACAGAAATTAGTATTGCGGACACATCTGTGGATTTTCTATCACATCTATTACTGTTTGGTAAGGATGGTTTGACAAAGTTACTCGATGCTTACGACAATGCAGGCGGAAGAACATGGTCAAGAATGGATGAGCATATAATTGAGTTGTTAACAACCAGCGCAATAACTGTAGCTGAATTCGCAGAGATATCTGACCTACAAGATATGCGTGAAACAGCTGCTCATATGCTTGCACAAAATGTATGA", "fmax": "5180", "accession": "NC_023287.1", "fmin": "4289", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Exiguobacterium sp. S3-2", "NCBI_taxonomy_id": "1389960", "NCBI_taxonomy_cvterm_id": "39580"}, "protein_sequence": {"accession": "WP_024127776.1", "sequence": "MNEFKRLAKNKGLDVLENSIVVNESGVDFQVAYAKDTLGSKWILRIPRRLDSMRSALKEKMALEIMEEHVSFQVPNWSIFDDELIAYKQLDGVPVATIDVEQQDYIWSFDKENTPQSYYQSLGKVLAELHTLPHRHFKEIGIKTLYARDLKSSMKIRMEKVRQKYHVNSELWERWQEWLANDSLWPSHVGVSHGDLHPGHILINKNFEVSGLIDWTEISIADTSVDFLSHLLLFGKDGLTKLLDAYDNAGGRTWSRMDEHIIELLTTSAITVAEFAEISDLQDMRETAAHMLAQNV"}}}}, "ARO_category": {"36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "36472": {"category_aro_name": "macrolide phosphotransferase (MPH)", "category_aro_cvterm_id": "36472", "category_aro_accession": "3000333", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Macrolide phosphotransferases (MPH) are enzymes encoded by macrolide phosphotransferase genes (mph genes). These enzymes phosphorylate macrolides in GTP dependent manner at 2'-OH of desosamine sugar thereby inactivating them. Characterized MPH's are differentiated based on their substrate specificity."}, "35919": {"category_aro_name": "macrolide antibiotic", "category_aro_cvterm_id": "35919", "category_aro_accession": "0000000", "category_aro_class_name": "Drug Class", "category_aro_description": "Macrolides are a group of drugs (typically antibiotics) that have a large macrocyclic lactone ring of 12-16 carbons to which one or more deoxy sugars, usually cladinose and desosamine, may be attached. Macrolides bind to the 50S-subunit of bacterial ribosomes, inhibiting the synthesis of vital proteins."}}, "ARO_name": "mphN", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42414", "model_name": "mphN", "model_type_id": "40292"}, "3219": {"model_id": "3219", "ARO_accession": "3004543", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A chromosomal macrolide phosphostransferase identified in Brachybacterium paraconglomeratum", "model_sequences": {"sequence": {"5085": {"dna_sequence": {"partial": "0", "sequence": "ATGACCGAGACCTCTCCCTCGAGCCCGTCGTCGGCCACGGCCGATGCCGGGACTCCCCCGCCCGCCGACCTCGAGCAGCTCCTCGCCCTCGCCGCCGATCACGGGCTCGACCTCCTCGGCGACTCGCTGCGCACCGAGGAGATCGGCCTCGACTTCCGCGTCGCCTTCGCCCGGTCGCGGGACTGGCAGGACTGGGTGCTGCGCATCCCCCGCCGCGCCGAGGTGCTGGCCCGCGCCGCGGTCGAGGGCCGGCTGCTCGCCCACCTCGCCCCGCACCTGGACATCGCGATCCCCGACTGGCGGATCAGCACGGAGCGCCTGATCGCCTATCCCCTCCTGCCCGGCACCCCGGGACTGACCGTCAGCGCCGACGGCACGGTCGAGTGGCACGTGGACATGGCCTCGACCGAGTACGCCCGCGCCCTCGGCACCTTCCTCGCCCAGCTCCACACCGTGGACCCCGAGGAGGCCGCCGCCACCGGGATCCCGTCCCGCACCCCGTCGGAGGTGCGCGGTGTATGGCGCGAGGACCTCACCCGGGTCGCGGAGGCCTTCCCCATCGCGCCGGCGCTGCGGGAGCGGTGGGAGGCGTGGCTGGCGGAGGACTCCTACTGGCCGGACCGCAGCGTGCTCACCCACGGTGAGGTGTACCCCGGCCACACCCTCGTCGAGGGCGAGCGGCTCAGCGCGGTGCTCGACTGGACCACGGCGTCCGTCGGCGATCCGGCGCGGGACCTCATGTTCCACCGCTCGAGCGCACCCCCGGAAGCCTTCGCGGCGACGCTCGCCGCCTACGTGGCCGGCGGCGGCACCCTCCACCCGCGGCTCGGCGAGCACGCCGAGGAGATGTTCTCCGCCTCCCCGCTCGCCTACGGGCTCTACGCGCTGGAGACCGGCGAGGAGGAGCACCGCGCCGCGGCGGCGGCCGCGCTCGACCCGCCGGACGCCGACTGA", "fmax": "77432", "accession": "NZ_AGSO01000004.1", "fmin": "76478", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Brachybacterium paraconglomeratum", "NCBI_taxonomy_id": "173362", "NCBI_taxonomy_cvterm_id": "42416"}, "protein_sequence": {"accession": "WP_050815728.1", "sequence": "MTETSPSSPSSATADAGTPPPADLEQLLALAADHGLDLLGDSLRTEEIGLDFRVAFARSRDWQDWVLRIPRRAEVLARAAVEGRLLAHLAPHLDIAIPDWRISTERLIAYPLLPGTPGLTVSADGTVEWHVDMASTEYARALGTFLAQLHTVDPEEAAATGIPSRTPSEVRGVWREDLTRVAEAFPIAPALRERWEAWLAEDSYWPDRSVLTHGEVYPGHTLVEGERLSAVLDWTTASVGDPARDLMFHRSSAPPEAFAATLAAYVAGGGTLHPRLGEHAEEMFSASPLAYGLYALETGEEEHRAAAAAALDPPDAD"}}}}, "ARO_category": {"36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "36472": {"category_aro_name": "macrolide phosphotransferase (MPH)", "category_aro_cvterm_id": "36472", "category_aro_accession": "3000333", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Macrolide phosphotransferases (MPH) are enzymes encoded by macrolide phosphotransferase genes (mph genes). These enzymes phosphorylate macrolides in GTP dependent manner at 2'-OH of desosamine sugar thereby inactivating them. Characterized MPH's are differentiated based on their substrate specificity."}, "35919": {"category_aro_name": "macrolide antibiotic", "category_aro_cvterm_id": "35919", "category_aro_accession": "0000000", "category_aro_class_name": "Drug Class", "category_aro_description": "Macrolides are a group of drugs (typically antibiotics) that have a large macrocyclic lactone ring of 12-16 carbons to which one or more deoxy sugars, usually cladinose and desosamine, may be attached. Macrolides bind to the 50S-subunit of bacterial ribosomes, inhibiting the synthesis of vital proteins."}}, "ARO_name": "mphO", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42415", "model_name": "mphO", "model_type_id": "40292"}, "2910": {"model_id": "2910", "ARO_accession": "3004478", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "Beta-lactamase found in Acinetobacter rudis efficiently inactivating carbapenems and amoxicillin conferring resistance to cephalosporins", "model_sequences": {"sequence": {"4763": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAAAAAATCTGTTTGCGTGTTTAGTACTATCTACAGCATTAACTCAAGTTGCTTGCTCTACACTGCAAACAACCGCTGATCCTTCTACGCAAGCATCTACTGCGCAGCAGTCAATCAAAAGCTATTTTGATGAAGTGCAGACGAAGGGCGTCATCGTCATTAAACAAGATGGACAACTGCAAACTTATGGTAATGATTTAAGCCGAGCCAATACTGAGTATGTTCCCGCTTCTACATTTAAAATCCTTAATGCTTTAATTGGATTAGAAAACCATAAAGTTACGCTAAATGAGGTTTTTAAATGGGATGGTCAAAAGCGCTCTTTTCCAACTTGGGAGAAGGATATGAACTTGGCTGAAGCAATGAAACTTTCAGCGGTACCTGTTTATCAGGAGCTGGCAAGACGTATTGGTGTGGACTTAATGGCACAAGAAGTAAAACGCCTTAACTTTGGTAATGCGCAAATCGGTACGCAAGTAGACAACTTTTGGTTGGTTGGCCCTTTGAAAGTTACACCAGTACAAGAGGTAGAGTTTGTTGAGCAACTTGCTCATAAGCAGTTGCCATTTAAGCCTGAAGTACAAGAGACAGTACAGCAGATGATTTTATTGCAGGAAGTTAAAGGCAATAAAATTTATGCAAAAAGTGGTTGGGGCATGGACCTAGATCCACAAGTCGGCTGGCTAACAGGCTGGGTAGAACAGCCTAACGGTAAAAAAGTCGCTTTTTCATTAAATATGGAAATGAAACCAAAGATGTCTGGTTCAATTCGTAATGAAATCACTCTAAAAGCACTTGAAAATCTAGGAGTTATTTAG", "fmax": "275453", "accession": "ATGI01000038.1", "fmin": "274631", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Acinetobacter rudis CIP 110305", "NCBI_taxonomy_id": "421052", "NCBI_taxonomy_cvterm_id": "41191"}, "protein_sequence": {"accession": "EPF70268.1", "sequence": "MKKNLFACLVLSTALTQVACSTLQTTADPSTQASTAQQSIKSYFDEVQTKGVIVIKQDGQLQTYGNDLSRANTEYVPASTFKILNALIGLENHKVTLNEVFKWDGQKRSFPTWEKDMNLAEAMKLSAVPVYQELARRIGVDLMAQEVKRLNFGNAQIGTQVDNFWLVGPLKVTPVQEVEFVEQLAHKQLPFKPEVQETVQQMILLQEVKGNKIYAKSGWGMDLDPQVGWLTGWVEQPNGKKVAFSLNMEMKPKMSGSIRNEITLKALENLGVI"}}}}, "ARO_category": {"36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36026": {"category_aro_name": "OXA beta-lactamase", "category_aro_cvterm_id": "36026", "category_aro_accession": "3000017", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "OXA beta-lactamases were long recognized as a less common but also plasmid-mediated beta-lactamase variety that could hydrolyze oxacillin and related anti-staphylococcal penicillins. These beta-lactamases differ from the TEM and SHV enzymes in that they belong to molecular class D and functional group 2d. The OXA-type beta-lactamases confer resistance to ampicillin and cephalothin and are characterized by their high hydrolytic activity against oxacillin and cloxacillin and the fact that they are poorly inhibited by clavulanic acid. Amino acid substitutions in OXA enzymes can also give the ESBL phenotype. The OXA beta-lactamase family was originally created as a phenotypic rather than a genotypic group for a few beta-lactamases that had a specific hydrolysis profile. Therefore, there is as little as 20% sequence homology among some of the members of this family. However, recent additions to this family show some degree of homology to one or more of the existing members of the OXA beta-lactamase family. Some confer resistance predominantly to ceftazidime, but OXA-17 confers greater resistance to cefotaxime and cefepime than it does resistance to ceftazidime."}}, "ARO_name": "OXA-665", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "41738", "model_name": "OXA-665", "model_type_id": "40292"}, "2912": {"model_id": "2912", "ARO_accession": "3001730", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "OXA-274 is a beta-lactamase found in Acinetobacter spp.", "model_sequences": {"sequence": {"4764": {"dna_sequence": {"partial": "0", "sequence": "ATGAGTAATAACCTATTTAAATTTAAAATAAAAAGCAGTGTATTGATCATTCTGAGTAGTGTGGCATTTTCAGGTTGTGTTTCTAATGCCAATTTGCATGATCCAGCTTCATCACAAAGAACAAGTGAAATTCCGTTGTTGTTTAATTATGCGCAAACTCAAGCCGTCTTTGTGACTTATGATGGAACTCAATTTAAACGCTATGGGAATGATTTAAATAGAGCCAAGACTGCGTATATTCCGGCCTCTACTTTTAAAATGTTGAATGCCTTAATTGGTTTGCAACATGCGAAAGCGACAAATACAGAAGTATTTAAGTGGAATGGTGAAAAAAGATCTTTTCCTGCTTGGGAAAAAGATATGACCTTGGCACAAGCAATGCAGGCTTCCGCCGTACCTGTATATCAGGAGTTGGCACGACGTATTGGTTTGGATTTGATGAGTCAAGAAGTCAAACGTGTTGGTTTTGGTAATACACAAATTGGTCAACAGGTGGATAATTTCTGGTTGGTTGGTCCATTGAAAATCACCCCAGAGCAAGAAGCTAAATTTGCTTATCAATTGGCAAAGAAAACATTGCCTTTTGATGATGCTGTACAACAGCAAGTCAAAGATATGCTTTATGTCGAAAGACGTGGTGATTCCAAGCTCTATGCCAAAAGTGGCTGGGGAATGGATGTTGAGCCACAAGTGGGTTGGTATACAGGATGGATAGAACAGCCGAATGGTCAGATCACTGCTTTTGCTTTAAATATGCACATGCAGACAGGGGATGATCCTGCTGAACGTAAGCAACTGACATTAAGTATCTTAGATAAATTAGGCTTATTCTTTTATTTGAGATAA", "fmax": "16330", "accession": "ASQG01000007.1", "fmin": "15484", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Acinetobacter guillouiae MSP4-18", "NCBI_taxonomy_id": "1330038", "NCBI_taxonomy_cvterm_id": "41741"}, "protein_sequence": {"accession": "EPH38243.1", "sequence": "MSNNLFKFKIKSSVLIILSSVAFSGCVSNANLHDPASSQRTSEIPLLFNYAQTQAVFVTYDGTQFKRYGNDLNRAKTAYIPASTFKMLNALIGLQHAKATNTEVFKWNGEKRSFPAWEKDMTLAQAMQASAVPVYQELARRIGLDLMSQEVKRVGFGNTQIGQQVDNFWLVGPLKITPEQEAKFAYQLAKKTLPFDDAVQQQVKDMLYVERRGDSKLYAKSGWGMDVEPQVGWYTGWIEQPNGQITAFALNMHMQTGDDPAERKQLTLSILDKLGLFFYLR"}}}}, "ARO_category": {"36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36026": {"category_aro_name": "OXA beta-lactamase", "category_aro_cvterm_id": "36026", "category_aro_accession": "3000017", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "OXA beta-lactamases were long recognized as a less common but also plasmid-mediated beta-lactamase variety that could hydrolyze oxacillin and related anti-staphylococcal penicillins. These beta-lactamases differ from the TEM and SHV enzymes in that they belong to molecular class D and functional group 2d. The OXA-type beta-lactamases confer resistance to ampicillin and cephalothin and are characterized by their high hydrolytic activity against oxacillin and cloxacillin and the fact that they are poorly inhibited by clavulanic acid. Amino acid substitutions in OXA enzymes can also give the ESBL phenotype. The OXA beta-lactamase family was originally created as a phenotypic rather than a genotypic group for a few beta-lactamases that had a specific hydrolysis profile. Therefore, there is as little as 20% sequence homology among some of the members of this family. However, recent additions to this family show some degree of homology to one or more of the existing members of the OXA beta-lactamase family. Some confer resistance predominantly to ceftazidime, but OXA-17 confers greater resistance to cefotaxime and cefepime than it does resistance to ceftazidime."}}, "ARO_name": "OXA-274", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "38130", "model_name": "OXA-274", "model_type_id": "40292"}, "2913": {"model_id": "2913", "ARO_accession": "3001741", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "OXA-286 is a beta-lactamase found in Acinetobacter spp.", "model_sequences": {"sequence": {"4765": {"dna_sequence": {"partial": "0", "sequence": "ATGGCTGCTTGTCAAAGTTTAAGCCAACAAAAGCAACAGCTCACGACAGAAAAAAATGATCAGCAGCAGATCTCAAGTTTATTCCAGAGCGCTCAAACCAGTGGTGTTTTGGTGATTTATGACGGCAAGAAAATTCAAAGCTATGGCAATGCGCTTGATCGTGCAGAGCAGCGTTATATTCCCGCCTCAACCTTTAAAATGTTGAATGCTTTGATCGGGATACAACATCATAAGACTGCACCAAATGAAGTGTTTAAATGGGATGGAAAAAAGCGAGCATTTAGTAGCTGGGAAAAAGATTTAACCTTAGCTGAAGCGATGCAGGCATCGGCGGTACCCGTTTATCAAGAGTTGGCAAGACGGATTGGTTTAGAACTGATGACCCGTGAAGTGAAGCGTGTAGGTTATGGTAATAAAAATATTGGGACGCAAGTGGATAATTTCTGGTTAGTTGGTCCCTTAAAAATCACTCCCGTAGAGGAAGTTCGCTTTGCCTATGCATTAGCAAAACAGAAATTACCCTTTGATCAGCCGACACAGCAACAAGTCAAAGCGATGTTATTGGTGGATCAGATCCAGGATACCAAAATCTATGCCAAAAGCGGTTGGGGAATGGATGTCAGCCCGCAAGTGGGTTGGTGGACGGGGTGGATTGAACAGCCAAATGGTAAGGTCATTGCATTCTCATTGAATATGCAAATGAGCCAGCCTGAACATGCAGATGCACGTAAAGCGATTGTGTATCAAGCCTTGCAACAGTTGGGATTGTTAGCCACTTAA", "fmax": "56509", "accession": "ASQH01000019.1", "fmin": "55729", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Acinetobacter gyllenbergii MTCC 11365", "NCBI_taxonomy_id": "1330039", "NCBI_taxonomy_cvterm_id": "41742"}, "protein_sequence": {"accession": "EPH31616.1", "sequence": "MAACQSLSQQKQQLTTEKNDQQQISSLFQSAQTSGVLVIYDGKKIQSYGNALDRAEQRYIPASTFKMLNALIGIQHHKTAPNEVFKWDGKKRAFSSWEKDLTLAEAMQASAVPVYQELARRIGLELMTREVKRVGYGNKNIGTQVDNFWLVGPLKITPVEEVRFAYALAKQKLPFDQPTQQQVKAMLLVDQIQDTKIYAKSGWGMDVSPQVGWWTGWIEQPNGKVIAFSLNMQMSQPEHADARKAIVYQALQQLGLLAT"}}}}, "ARO_category": {"36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36026": {"category_aro_name": "OXA beta-lactamase", "category_aro_cvterm_id": "36026", "category_aro_accession": "3000017", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "OXA beta-lactamases were long recognized as a less common but also plasmid-mediated beta-lactamase variety that could hydrolyze oxacillin and related anti-staphylococcal penicillins. These beta-lactamases differ from the TEM and SHV enzymes in that they belong to molecular class D and functional group 2d. The OXA-type beta-lactamases confer resistance to ampicillin and cephalothin and are characterized by their high hydrolytic activity against oxacillin and cloxacillin and the fact that they are poorly inhibited by clavulanic acid. Amino acid substitutions in OXA enzymes can also give the ESBL phenotype. The OXA beta-lactamase family was originally created as a phenotypic rather than a genotypic group for a few beta-lactamases that had a specific hydrolysis profile. Therefore, there is as little as 20% sequence homology among some of the members of this family. However, recent additions to this family show some degree of homology to one or more of the existing members of the OXA beta-lactamase family. Some confer resistance predominantly to ceftazidime, but OXA-17 confers greater resistance to cefotaxime and cefepime than it does resistance to ceftazidime."}}, "ARO_name": "OXA-286", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "38141", "model_name": "OXA-286", "model_type_id": "40292"}, "2914": {"model_id": "2914", "ARO_accession": "3004480", "model_param": {"blastp_bit_score": {"param_value": "2000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "Bifidobacterium are antibiotic resistant probiotics are prescribed to upkeep the population beneficial bacteria in the gut microbiome. However, horizontal gene transfer among gut microbes could create harmful antibiotic-resistant pathogenic bacteria, such as Mycobacterium tuberculosis. Lokesh et al. analyzed Bifidobacterium antitubercular drug resistance and mutations in rpo\u03b2. They found that B. animalis, B. longum and B. adolescentis showed considerable resistance to pyrazinamide, isoniazid, and streptomycin, while B. adolescentis had mutations both in the rifampicin (RIF) pocket and in regions outside the pockets, and also showed considerable resistance to RIF.", "model_sequences": {"sequence": {"4766": {"dna_sequence": {"partial": "0", "sequence": "CTGCACAAGGCGTCGGACCGTGTGAATTTCGGCTCCATCCGCGAGCCCATTGATGTACCCTACCTGTTGGGTGTACAGACTGACAGCTTTGACTGGCTCATCGGCAACGAGCGCTGGCAGAAGCGAGTCCAGGAGGATCTGGAGAACGGCACCAACACCGTGCCCCACACCTCCGGTCTTGACGAGGTCTTCCAGGAGATCTCCCCGATCGAGAACTTCGCTCAGACCATGAGCCTGACCTTCTCCGATCCGTACTTCGAAGAACCGCGCCACACCGTGCAGGAATGCAAGGAGAAGGATTACACCTACTCCGCGCCGCTGTACGTGAACGCCGAATTCGAGAACGGCGACACCGGCGAAATCAAGTCCCAGACCGTGTTCATGGGCGATTTCCCGCTGCAGACCCCGCACGGCACCTTCATCATCGGTGGTACCGAGCGAGTGATCGTGTCCCAGCTCGTGCGTTCCCCGGGCGTGTACTTCGACCGTTCCCAGGACCGTACCTCCGATAAGGAAGTCTTCGGCGCGAAGATCATCCCGAGCCGTGGCGCATGGCTCGAGTTCGAGATCGACAAGCGCGACGTCCTCGGCGTGCGCGTGGACCGTAAGCGCAAGCAGTCCGCCATCGTGTTCCTCATGGCCATCGGCATGACCAAGGATGAAATTGCCGACGCCTTCAAGGACTACCCGCTGGTCATGGACGCTCTCGCCAAGGAGACCGTGCAGACCCAGGACGAGGCCCTGACCGACCTGTACCGCAAGATCCGTCCGGCCGACACCCCGACTCCGGAAGCCGGCAAGAACCTGCTGGACTCCTTCTACTTCAACACCAAGCGTTACGATCTGGCCCGCGTCGGCCGTTACAAGATCAACCGCAAGCTTGGTCTGGAAAAGGACGTCAACGACCGCAGCCTGTCCCGCGAGGACATCATCGCCACCATCAAGTACTTGGTCACCCTGCATGCGGGCGAGACCAAGTTCCCGGGCAAGCGCGACGGCCAGGACGTTGACCTGCGCGTGGACGTCGACGATATCGACCACTTCGGCAACCGTCGTATCCGCCAGGTCGGCGAGCTGATCCAGAACCAGCTGCGCACCGGTCTGAGCCGTATGGAGCGTGTGGTCCGCGAACGTATGACCACCCAGGATCCCGAGGCCATCACCCCGCAGTCCCTGATCAACATCCGTCCGGTGAACGCCACCATCAAGGAGTTCTTCGGAACCTCCCAGCTGTCCCAGTTCATGGATCAGAACAACCCGCTGGCTGGCGTGACCAACAAGCGTCGTCTGTCCGCTCTGGGCCCCGGTGGCCTGTCCCGCGACCGCGCCTCCATGGAAGTGCGAGACGTGCACCCGTCCCATTTCGGCCGTATGTGCCCGATCGAGTCTCCTGAAGGCCCGAACATCGGTCTGATCGGCTCCCTGGCAACCTTCGGTCGCATCAACCCGTTCGGTTTCATCGAGACCCCGTACCGCAAGGTCGTCAACGGCCACGTCACCGATGAAGTCGAGTACATGACCGCTGACCGCGATGCCGAGCACGTCATCGCCCAGGCCAACCAGGAGCTCGACGAGAACGGCAACTTCGTCAAGAAGCAGGCTCTTGCCCGAGTCGGCGAAGAGGAAGCGGTCGATGTGCCGGTCAGCTCCGTCGATTACATGGACGTCTCCCCGCGTCAGATGGTTTCCGTCGGCGCCTCCCTGATTCCGTTCCTGGAGCACGATGAGGGCCACCGAGCGCTGATGGGCACCAACATGCAGCGTCAGGCCGTGCCGCTGATCGAATCCGAGCGTCCGCTCGTGGGCACCGGCGCCGAATGGCGCGCCGCCGTCGATTCCGGCGACGTCATCCTGGCCGAGAAGCCGGGCGTGGTGACCTACGTGTCCGCCGACATCATCCGTACCATGAACGACGATGGCACCACCAGCTCCTACAAGCTGGCCAAATTCCAGCGTTCCAACCAGACCACCTGCTACAACCAGGTCCCGCTCATCCACGACGGTGAACGCGTGGAAGCCGGCACCGTGCTGGCCGATGGTCCGGCAACCCAGAAGGGCGAGATGGCACTGGGCAAGAACCTGCTCATCGCCTTCATGCCGTGGAACGGCTACAACTACGAGGATGCTGTGATCATCTCCCAGCGCCTTGTGCAGGACGACACCCTGAGCTCCATCCACATCGAGGAGTACGAGATCGATGCCCGTGAAACCAAGCTGGGCGCCGAAGAGATCACCCGCGACCTGCCGAACGTCGGCGAGGACGCGGTGGCCAACCTCGACGAGCGTGGCATCATCCGCATCGGCGCCGAAGTCGAAGCCGGCGACATCCTGGTCGGCAAGGTCACCCCGAAGGGCGAGACCGAGCTGACTCCGGAAGAGCGCCTGCTGCGCGCCATCTTCGGTGAGAAGAGCCGCGAAGTGCGTGACACCTCGCTGCGCGTGCCTCACGGCGAGACCGGCACCGTCATCGCGGTCAAGGAAATCACCCGCGAGGACGCCGAGGAAGACGGCGACGAACTGCCGAACGGCGTGAACCAGATGATTCGCGTCTACATCGCACAGCACCGTAAGATCACCCAGGGCGACAAGCTCTCCGGCCGTCACGGCAACAAGGGCGTCATCTCCCGCATCCTGCCGGAAGAGGACATGCCGTTCCTCGCCGACGGTACTCCGGTGGACATCATGCTGAACCCGCTGGGCGTGCCTTCTCGAATGAACCTTGGCCAGGTGCTGGAACTGCACCTCGGCTGGATCGCGCACGCTGGCTGGGACATCTCCCTGGATCCGGATGCCGAGGCCGCTTGGAAGAAGTACGTGCCGCAGGGCGCCGAAAAGGGCGCTCCGGGCACTCCGGTGGCCACCCCGGTGTTCGACGGCGTCCGTCCGGAAACCATCAAGGGCCTGCTCAGCTGCACCCTTCCGGACCGCGACGGCAACAAGCTCGTCGGCCCCGACGGCAAGGCGACCCTGTTCGACGGCCGTACCGGCGAACCGTTCCCGAAGCCGATCTCCGTGGGCTACATGTACATGCTGAAGCTGCACCACCTGGTCGACGACAAGATCCACGCCCGCTCCACCGGCCCGTACTCCATGATCACCCAGCAGCCGCTGGGCGGCAAGGCTCAGTTCGGTGGCCAGCGCTTCGGCGAGATGGAAGTGTGGGCCCTCGAGGCCTACGGTGCCGCCTACACGCTGCACGAAATGATGACCACCAAGTCCGATGACGTCGACGGCCGCGTGCGCGTCTACGGCGCCATCGTGAAGGGCGAGAACCTGCCGCCGGCAGGCATCCCGGAGTCCTTCAAGGTGCTGCTTAAGGAAATGCAGTCCCTGTCCCTGAATGTCGAAGTGCTCAACGCCGACGGCGTGGCTATCGACATGAAGGAAGAGGACGACGATCCGTCCACATCCTCCGATGATCTGGGCTTCAACATTGGTGCGCGTCCTGACGCTGCCGCCAAGGAAGATCAGGTTGCCGAGGAACCCGAATTCCAGTGA", "fmax": "1670561", "accession": "AP009256", "fmin": "1667063", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bifidobacterium adolescentis ATCC 15703", "NCBI_taxonomy_id": "367928", "NCBI_taxonomy_cvterm_id": "41744"}, "protein_sequence": {"accession": "A1A317", "sequence": "MAEATTNTTTIIARADQHDIDLHKASDRVNFGSIREPIDVPYLLGVQTDSFDWLIGNERWQKRVQEDLENGTNTVPHTSGLDEVFQEISPIENFAQTMSLTFSDPYFEEPRHTVQECKEKDYTYSAPLYVNAEFENGDTGEIKSQTVFMGDFPLQTPHGTFIIGGTERVIVSQLVRSPGVYFDRSQDRTSDKEVFGAKIIPSRGAWLEFEIDKRDVLGVRVDRKRKQSAIVFLMAIGMTKDEIADAFKDYPLVMDALAKETVQTQDEALTDLYRKIRPADTPTPEAGKNLLDSFYFNTKRYDLARVGRYKINRKLGLEKDVNDRSLSREDIIATIKYLVTLHAGETKFPGKRDGQDVDLRVDVDDIDHFGNRRIRQVGELIQNQLRTGLSRMERVVRERMTTQDPEAITPQSLINIRPVNATIKEFFGTSQLSQFMDQNNPLAGVTNKRRLSALGPGGLSRDRASMEVRDVHPSHFGRMCPIESPEGPNIGLIGSLATFGRINPFGFIETPYRKVVNGHVTDEVEYMTADRDAEHVIAQANQELDENGNFVKKQALARVGEEEAVDVPVSSVDYMDVSPRQMVSVGASLIPFLEHDEGHRALMGTNMQRQAVPLIESERPLVGTGAEWRAAVDSGDVILAEKPGVVTYVSADIIRTMNDDGTTSSYKLAKFQRSNQTTCYNQVPLIHDGERVEAGTVLADGPATQKGEMALGKNLLIAFMPWNGYNYEDAVIISQRLVQDDTLSSIHIEEYEIDARETKLGAEEITRDLPNVGEDAVANLDERGIIRIGAEVEAGDILVGKVTPKGETELTPEERLLRAIFGEKSREVRDTSLRVPHGETGTVIAVKEITREDAEEDGDELPNGVNQMIRVYIAQHRKITQGDKLSGRHGNKGVISRILPEEDMPFLADGTPVDIMLNPLGVPSRMNLGQVLELHLGWIAHAGWDISLDPDAEAAWKKYVPQGAEKGAPGTPVATPVFDGVRPETIKGLLSCTLPDRDGNKLVGPDGKATLFDGRTGEPFPKPISVGYMYMLKLHHLVDDKIHARSTGPYSMITQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLHEMMTTKSDDVDGRVRVYGAIVKGENLPPAGIPESFKVLLKEMQSLSLNVEVLNADGVAIDMKEEDDDPSTSSDDLGFNIGARPDAAAKEDQVAEEPEFQ"}}}}, "ARO_category": {"36308": {"category_aro_name": "rifampin", "category_aro_cvterm_id": "36308", "category_aro_accession": "3000169", "category_aro_class_name": "Antibiotic", "category_aro_description": "Rifampin is a semi-synthetic rifamycin, and inhibits RNA synthesis by binding to RNA polymerase. Rifampin is the mainstay agent for the treatment of tuberculosis, leprosy and complicated Gram-positive infections."}, "36673": {"category_aro_name": "rifapentine", "category_aro_cvterm_id": "36673", "category_aro_accession": "3000534", "category_aro_class_name": "Antibiotic", "category_aro_description": "Rifapentine is a semisynthetic rifamycin that inhibits DNA-dependent RNA synthesis. It is often used in the treatment of tuberculosis and leprosy."}, "36669": {"category_aro_name": "rifabutin", "category_aro_cvterm_id": "36669", "category_aro_accession": "3000530", "category_aro_class_name": "Antibiotic", "category_aro_description": "Rifabutin is a semisynthetic rifamycin used in tuberculosis therapy. It inhibits DNA-dependent RNA synthesis."}, "36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "36349": {"category_aro_name": "rifamycin-resistant beta-subunit of RNA polymerase (rpoB)", "category_aro_cvterm_id": "36349", "category_aro_accession": "3000210", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Rifampin resistant RNA polymerases include amino acids substitutions which disrupt the affinity of rifampin for its binding site. These mutations are frequently concentrated in the rif I region of the beta-subunit and most often involve amino acids which make direct interactions with rifampin. However, mutations which also confer resistance can occur outside this region and may involve amino acids which do not directly make contact with rifampin."}, "35998": {"category_aro_name": "antibiotic target replacement", "category_aro_cvterm_id": "35998", "category_aro_accession": "0001002", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Replacement or substitution of antibiotic action target, which process will result in antibiotic resistance."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36656": {"category_aro_name": "rifaximin", "category_aro_cvterm_id": "36656", "category_aro_accession": "3000517", "category_aro_class_name": "Antibiotic", "category_aro_description": "Rifaximin is a semi-synthetic rifamycin used to treat traveller's diarrhea. Rifaximin inhibits RNA synthesis by binding to the beta subunit of bacterial RNA polymerase."}, "36296": {"category_aro_name": "rifamycin antibiotic", "category_aro_cvterm_id": "36296", "category_aro_accession": "3000157", "category_aro_class_name": "Drug Class", "category_aro_description": "Rifamycin antibiotics are a group of broad-spectrum ansamycin antibiotics that inhibit bacterial RNA polymerase by binding to a highly conserved region, blocking the oligonucleotide exit tunnel, and preventing the extension of nascent mRNAs."}}, "ARO_name": "Bifidobacterium adolescentis rpoB mutants conferring resistance to rifampicin", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "41743", "model_name": "Bifidobacterium adolescentis rpoB conferring resistance to rifampicin", "model_type_id": "40292"}, "3128": {"model_id": "3128", "ARO_accession": "3004500", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 phosphoethanolamine transferase and polymyxin resistance gene variant differing by 2 amino acid substitutions, identified from an Escherichia coli isolate.", "model_sequences": {"sequence": {"4986": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTTCCGCTTATGTTCTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAAGATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAATAAAGCCTTTTTTTGCACTTCTTATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCGTTAGCATATTTAAGCTTACCAATTATAGTATGGGTTACTATTGCTGGTTTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGGAAAAATGGTTCAAAGGGATTCTAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTGTCAGTGGGGCGCAACAATTCAAACCTCCAGCGTGAGATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATACGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTTCTGGTCGTTGGTGAAACCGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGACACCAATCCATTTACCAGTAAATCTGGTGGCGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCCGTCCCCTGCATGTTCTCCAATATGGGGAGAAAGGAGTTTGATGATAATCGCGCTCGCAATAGCGAGGGCCTGCTAGATGTGTTGCAAAAAACGGGGATCTCCATTTTTTGGAAGGAGAACGATGGAGGCTGCAAAGGCGTCTGCGACCGAGTACCTAACATCGAAATCGAACCAAAGGATCACCCTAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGACCTCGATAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGTCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAGCGCTACCCTGATGCTCATCGTCAGTTCACCCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACCGATTTCGTGATTGGAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCATGGTGAATCACTGGGAGCATTAGGGCTTTACCTACACGGTACACCGTACACGTTTGCACCGGATGATCAGACCCGTGTTCCTATGCAGGTGTGGATGTCACCTGGATTTACCAAAGAGAAAGGCGTTGATATGGCGTGTTTGCAGCAGAAAGCCGCTGATACTCGTTACTCACACGATAATATTTTCTCATCTGTATTGGGTATCTGGGACGTCAAAACATCAGTTTACGAAAAGGGTCTAGATATTTTCAGTCAATGTCGTAATGTTCAATAA", "fmax": "1626", "accession": "NG_056184.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "WP_102607465.1", "sequence": "MPSLIKIKIVPLMFFLALYFAFMLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFVFVPFSIRYLIKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIVWVTIAGFIPAILLFFVEIEYEEKWFKGILTRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNRARNSEGLLDVLQKTGISIFWKENDGGCKGVCDRVPNIEIEPKDHPKFCDKNTCYDEVVLQDLDSEIAQMKGDKLVVFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIGEMIAKLKTYEDKYNTALLYVSDHGESLGALGLYLHGTPYTFAPDDQTRVPMQVWMSPGFTKEKGVDMACLQQKAADTRYSHDNIFSSVLGIWDVKTSVYEKGLDIFSQCRNVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.11", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42205", "model_name": "MCR-3.11", "model_type_id": "40292"}, "3135": {"model_id": "3135", "ARO_accession": "3004507", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-1 phosphoethanolamine transferase and polymyxin resistance gene variant identified from an enterotoxigenic Escherichia coli clinical isolate.", "model_sequences": {"sequence": {"4993": {"dna_sequence": {"partial": "0", "sequence": "ATGATGCAGCATACTTCTGTGTGGTACCGACGCTCGGTCAGTCCGTTTGTTCTTGTGGCGAGTGTTGCCGTTTTCTTGACCGCGACCGCCAATCTTACCTTTTTTGATAAAATCAGCCAAACCTATCCCATCGCGGACAATCTCGGCTTTGTGCTGACGATCGCTGTCGTGCTCTTTGGCGCGATGCTACTGATCACCACGCTGTTATCATCGTATCGCTATGTGCTAAAGCCTGTGTTGATTTTGCTATTAATCATGGGCGCGGTGACCAGTTATTTTACTGACACTTATGGCACGGTCTATGATACGACCATGCTCCAAAATGCCCTACAGACCGACCAAGCCGAGACCAAGGATCTATTAAACGCAGCGTTTATCATGCGTATCATTGGTTTGGGTGTGCTACCAAGTTTGCTTGTGGCTTTTGTTAAGGTGGATTATCCGACTTGGGGCAAGGGTTTGATGCGCCGATTGGGCTTGATCGTGGCAAGTCTTGCGCTGATTTTACTGCCTGTGGTGGCGTTCAGCAGTCATTATGCCAGTTTCTTTCGCGTGCATAAGCCGCTGCGTAGCTATGTCAATCCGATCATGCCAATCTACTCGGTGGGTAAGCTTGCCAGTATTGAGTATAAAAAAGCCAGTGCGCCAAAAGATACCATTTATCACGCCAAAGACGCGGTACAAGCAACCAAGCCTGATATGCGTAAGCCACGCCTAGTGGTGTTCGTCGTCGGTGAGACGGCACGCGCCGATCATGTCAGCTTCAATGGCTATGAGCGCGATACTTTCCCACAGCTTGCCAAGATCGATGGCGTGACCAATTTTAGCAATGTCACATCGTGCGGCACATCGACGGCGTATTCTGTGCCGTGTATGTTCAGCTATCTGGGCGCGGATGAGTATGATGTCGATACCGCCAAATACCAAGAAAATGTGCTGGATACGCTGGATCGCTTGGGCGTAAGTATCTTGTGGCGTGATAATAATTCGGACTCAAAAGGCGTGATGGATAAGCTGCCAAAAGCGCAATTTGCCGATTATAAATCCGCGACCAACAACGCCATCTGCAACACCAATCCTTATAACGAATGCCGCGATGTCGGTATGCTCGTTGGCTTAGATGACTTTGTCGCTGCCAATAACGGCAAAGATATGCTGATCATGCTGCACCAAATGGGCAATCACGGGCCTGCGTATTTTAAGCGATATGATGAAAAGTTTGCCAAATTCACGCCAGCGTGTGAAGGTAATGAGCTTGCCAAGTGCGAACATCAGTCCTTGATCAATGCTTATGACAATGCCTTGCTTGCCACCGATGATTTCATCGCTCAAAGTATCCAGTGGCTGCAGACGCACAGCAATGCCTATGATGTCTCAATGCTGTATGTCAGCGATCATGGCGAAAGTCTGGGTGAGAACGGTGTCTATCTACATGGTATGCCAAATGCCTTTGCACCAAAAGAACAGCGCAGTGTGCCTGCATTTTTCTGGACGGATAAGCAAACTGGCATCACGCCAATGGCAACCGATACCGTCCTGACCCATGACGCGATCACGCCGACATTATTAAAGCTGTTTGATGTCACCGCGGACAAAGTCAAAGACCGCACCGCATTCATCCGCTGA", "fmax": "1726", "accession": "NG_055582.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "WP_099982800.1", "sequence": "MMQHTSVWYRRSVSPFVLVASVAVFLTATANLTFFDKISQTYPIADNLGFVLTIAVVLFGAMLLITTLLSSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAETKDLLNAAFIMRIIGLGVLPSLLVAFVKVDYPTWGKGLMRRLGLIVASLALILLPVVAFSSHYASFFRVHKPLRSYVNPIMPIYSVGKLASIEYKKASAPKDTIYHAKDAVQATKPDMRKPRLVVFVVGETARADHVSFNGYERDTFPQLAKIDGVTNFSNVTSCGTSTAYSVPCMFSYLGADEYDVDTAKYQENVLDTLDRLGVSILWRDNNSDSKGVMDKLPKAQFADYKSATNNAICNTNPYNECRDVGMLVGLDDFVAANNGKDMLIMLHQMGNHGPAYFKRYDEKFAKFTPACEGNELAKCEHQSLINAYDNALLATDDFIAQSIQWLQTHSNAYDVSMLYVSDHGESLGENGVYLHGMPNAFAPKEQRSVPAFFWTDKQTGITPMATDTVLTHDAITPTLLKLFDVTADKVKDRTAFIR"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-1.9", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42216", "model_name": "MCR-1.9", "model_type_id": "40292"}, "3134": {"model_id": "3134", "ARO_accession": "3004506", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-1 phosphoethanolamine transferase and polymyxin (colistin) resistance gene variant identified from an Escherichia porcine isolate in Great Britain.", "model_sequences": {"sequence": {"4992": {"dna_sequence": {"partial": "0", "sequence": "ATGGTGCAGCATACTTCTGTGTGGTACCGATGCTCGGTCAGTCCGTTTGTTCTTGTGGCAAGTGTTTCCGTTTTCTTGACCGCGACCGCCAATCTTACCTTTTTTGATAAAATCAGCCAAACCTATCCCATCGCGGACAATCTCGGCTTTGTGCTGACGATCGCTGTCGTGCTCTTTGGCGCGATGCTACTGATCACCACACTGTTATCATCGTATCGCTATGTGCTAAAGCCTGTGTTGATTTTGCTATTAATCATGGGCGCGGTGACTAGTTATTTTACTGACACTTATGGCACGGTCTATGACACGACCATGCTCCAAAATGCCCTACAGACCGACCAAGCCGAGACCAAGGATCTATTAAACGCAGCGTTTATCATGCGTATCATTGGTTTGGGTGTACTACCAAGTTTGCTTGTGGCTTTTGTCAAGGTGGATTATCCGACTTGGGGCAAGGGTTTGGTGCGCCGATTGGGCTTGATCGTGGCAAGTCTTGCGCTGATTTTACTGCCTGTGGTGGCGTTCAGCAGTCATTATGCCAGTTTTTTTCGCGTGCATAAGCCGCTGCGTTCGTATGTCAATCCGATCATGCCAATCTACTCGGTGGGTAAGCTTGCCAGTATTGAGTATAAAAAAGCCAGTGCGCCAAAAGATACCATTTATCACGCCAAAGACGCGGTACAAGCAACCAAGCCTGATACGCGTAAGCCACGCCTAGTGGTGTTCGTCGTCGGTGAGACGGCACGCGCCGATCATGTCAGCTTCAATGGCTATGAGCGCGATACTTTCCCACAGCTTGCCAAGATCGATGGCGTGACCAATTTTAGCAATGTCACATCGTGCGGCACATCGACGGCGTATTCTGTGCCGTGTATGTTCAGCTATCTGGGCGCGGATGAGTATGATGTCGATACCGCCAAATACCAAGAAAATGTGCTTGATACGCTGGATCGTTTGGGCGTGAGCATCTTGTGGCGTGATAATAATTCGGACTCAAAAGGCGTGATGGATAAGCTGCCAAAAGCGCAATTTGCCGATTATAAATCCGCAACCAACAACACCATCTGCAACACCAATCCTTATAACGAATGCCGCGATGTCGGTATGCTCGTTGGCTTAGATGACTTTGTCGCTGCCAATAACGGCAAAGATATGCTGATCATGCTGCACCAAATGGGCAATCACGGGCCTGCGTATTTTAAGCGATATGATGAAAAGTTTGCCAAATTCACGCCAGTGTGTGAAGGTAATGAGCTTGCCAAGTGCGAACATCAGTCTTTGATCAATGCTTATGACAATGCCTTGCTTGCCACCGATGATTTCATCACTCAAAGTATCCAGTGGCTGCAGACGCACAGCAATGCCTATGATGTCTCGATGCTGTATGTCAGCGATCATGGCGAGAGTCTAGGTGAGAATGGTGTCTATCTACATGGTATGCCTAATGCCTTTGCACCAAAAGAACAGCGCAGTGTGCCTGCATTTTTCTGGACAGATAAGCAAACTGGCATCACGCCGATGGCGACCGATACTGTCCTGACCCATGATGCGATCACACCAACATTATTAAAGCTGTTCGATGTTACCGCAGATAAAGTCAAAGACCGCACCGCATTCATCCGCTGA", "fmax": "1626", "accession": "NG_055583.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Moraxella sp. MSG13-C03", "NCBI_taxonomy_id": "1935432", "NCBI_taxonomy_cvterm_id": "42215"}, "protein_sequence": {"accession": "WP_096807442.1", "sequence": "MVQHTSVWYRCSVSPFVLVASVSVFLTATANLTFFDKISQTYPIADNLGFVLTIAVVLFGAMLLITTLLSSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAETKDLLNAAFIMRIIGLGVLPSLLVAFVKVDYPTWGKGLVRRLGLIVASLALILLPVVAFSSHYASFFRVHKPLRSYVNPIMPIYSVGKLASIEYKKASAPKDTIYHAKDAVQATKPDTRKPRLVVFVVGETARADHVSFNGYERDTFPQLAKIDGVTNFSNVTSCGTSTAYSVPCMFSYLGADEYDVDTAKYQENVLDTLDRLGVSILWRDNNSDSKGVMDKLPKAQFADYKSATNNTICNTNPYNECRDVGMLVGLDDFVAANNGKDMLIMLHQMGNHGPAYFKRYDEKFAKFTPVCEGNELAKCEHQSLINAYDNALLATDDFITQSIQWLQTHSNAYDVSMLYVSDHGESLGENGVYLHGMPNAFAPKEQRSVPAFFWTDKQTGITPMATDTVLTHDAITPTLLKLFDVTADKVKDRTAFIR"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-1.10", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42214", "model_name": "MCR-1.10", "model_type_id": "40292"}, "3137": {"model_id": "3137", "ARO_accession": "3004509", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 polymyxin (incl. colistin) resistance gene variant identified from an Aeromonas isolate", "model_sequences": {"sequence": {"4995": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTTCCGCTTATATTTTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAAGATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAATAAAGCCTTTTTTTGCACTTCTGATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCGTTAGCATATTTAAGCTTACCAATCATAGGATGGGTTACTATTGCTGGTTTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGGAAAAATGGTTCAAAGGGATTCTAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTGTCAGTGGGGCGAAACAATTCAAACCTCCAGCGTGAAATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATACGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTTCTGGTCGTTGGTGAAACCGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGACACCAATCCATTTACCAGTAAATCTGGTGGCGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCTGTCCCCTGCATGTTCTCCAATATGGGGAGAAAGGAGTTTGATGATAATCTCGCTCGTAATAGCGAGGGTTTGTTAGATGTGTTGCAGAAAACGGGGGTCTCCATTTTTTGGAAGGAGAACGATGGCGGCTGCAAAGGCGTCTGCGACCGAGTTCCTAACATCGAGATCAAACCGAAGGATTACCCAAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGAGCTCGACAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTCATAGGTAGCCATGGCCCAACCTACTACAAACGCTACCCTGATGCTCATCGTCAGTTCACTCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACCGATTTCGTGATTGCAGAGATGATTGCCAAGTTGAAAACCTACGAAGACAAGTACAACACCGCGTTGCTCTACGTCTCCGATCACGGTGAATCACTGGGAGCTATGGGGCTTTACCTGCACGGTACACCGTACAAATTTGCACCGGATGATCAGACCCGCGTACCTATGCAGGTGTGGATGTCGCCTGGTTTCATCAAAGAAAAAGGCATGAATATGGAATGTTTGCAGAAAAATGCCGCAGCCAATCGCTATTCTCATGACAACATATTTTCTTCTGTCCTGGGAATATGGGATGTGAAGACGGCTATCTACGAACAAGAATTAGATATCTTTAAGCAATGTCGGAATAATTGA", "fmax": "1623", "accession": "NG_055662.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Aeromonas hydrophila", "NCBI_taxonomy_id": "644", "NCBI_taxonomy_cvterm_id": "36810"}, "protein_sequence": {"accession": "WP_099156048.1", "sequence": "MPSLIKIKIVPLIFFLALYFAFMLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFVFVPFSIRYLIKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIGWVTIAGFIPAILLFFVEIEYEEKWFKGILTRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNLARNSEGLLDVLQKTGVSIFWKENDGGCKGVCDRVPNIEIKPKDYPKFCDKNTCYDEVVLQELDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIAEMIAKLKTYEDKYNTALLYVSDHGESLGAMGLYLHGTPYKFAPDDQTRVPMQVWMSPGFIKEKGMNMECLQKNAAANRYSHDNIFSSVLGIWDVKTAIYEQELDIFKQCRNN"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.8", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42218", "model_name": "MCR-3.8", "model_type_id": "40292"}, "3217": {"model_id": "3217", "ARO_accession": "3004541", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A chromosomal macrolide phosphotransferase identified from Bacillus subtilis", "model_sequences": {"sequence": {"5081": {"dna_sequence": {"partial": "0", "sequence": "ATGACAAACCTTAACGAAAAACAGCTTATCACTGAGATTGTCGGGCTTGCACGCAGCCAAGGTTTGACGGTTCATTCTGAGAACGCGCAATTGAATGAAACCGGAATGGACTTTCAAGTTGTATTTGCCAAGGACGACACAGGTATGCCATGGGTGCTGCGAAAACCGCGGCGAAGTGATGTTGTGGAAAGAGCATCTGCAGAAGGCATAACGCTTGCCTTTCTCCGCGCGAATCTGACTGCTGATGTGCCGGATTGGAGAATTCATACACCGGAATTGATCGCTTACCCCATGTTAAAAGGAACGCCGGCTGCTGGAATTGACTTGGAACAAAAGCAATATGTATGGAATATGGATCATCAGCCGCCGTCAGACGACTTTGTCCGCACACTTGCCGACATACTGGCTGAATTACATGGCACGGATCAAATATCTGCTGGGCAATCCGGAATAGAAGTGATAAGGCCAGAAGATTTCAGGCAAATGACAGCAGACTCTATGGTTGATGTGAAGAATAAGCTTGGCGTATCTACGACGCTTTGGGAAAGATGGCAAAAGTGGGTAGATGATGATGCATACTGGCCGGGTTTCTCTTCTTTGATACACGGCGATCTCCACCCGCCGCATATCCTTATCGATCAAAATGGACGTGTCACAGGACTTCTGGATTGGACAGAAGCGAAGGTTGCTGACCCAGCCAAGGATTTTGTTCTTTATCAAACCATTTTCGGAGAAAAAGAAACTGCCCGTTTGCTTGAATACTATGATCAAGCAGGCGGCCGAATATGGGCAAAAATGCAGGAACACATCTCAGAGATGCAGGCGGCGTATCCGGTGGAAATCGCCAAGCTAGCTCTGCAAACACAGCAGGAGGAACACATCAATATGGCGCTGGAAGCACTTGGTGTAACATCGGATTAA", "fmax": "276758", "accession": "NC_000964.3", "fmin": "275837", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillales", "NCBI_taxonomy_id": "1385", "NCBI_taxonomy_cvterm_id": "41698"}, "protein_sequence": {"accession": "WP_003246254.1", "sequence": "MTNLNEKQLITEIVGLARSQGLTVHSENAQLNETGMDFQVVFAKDDTGMPWVLRKPRRSDVVERASAEGITLAFLRANLTADVPDWRIHTPELIAYPMLKGTPAAGIDLEQKQYVWNMDHQPPSDDFVRTLADILAELHGTDQISAGQSGIEVIRPEDFRQMTADSMVDVKNKLGVSTTLWERWQKWVDDDAYWPGFSSLIHGDLHPPHILIDQNGRVTGLLDWTEAKVADPAKDFVLYQTIFGEKETARLLEYYDQAGGRIWAKMQEHISEMQAAYPVEIAKLALQTQQEEHINMALEALGVTSD"}}}}, "ARO_category": {"36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "36472": {"category_aro_name": "macrolide phosphotransferase (MPH)", "category_aro_cvterm_id": "36472", "category_aro_accession": "3000333", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Macrolide phosphotransferases (MPH) are enzymes encoded by macrolide phosphotransferase genes (mph genes). These enzymes phosphorylate macrolides in GTP dependent manner at 2'-OH of desosamine sugar thereby inactivating them. Characterized MPH's are differentiated based on their substrate specificity."}, "35919": {"category_aro_name": "macrolide antibiotic", "category_aro_cvterm_id": "35919", "category_aro_accession": "0000000", "category_aro_class_name": "Drug Class", "category_aro_description": "Macrolides are a group of drugs (typically antibiotics) that have a large macrocyclic lactone ring of 12-16 carbons to which one or more deoxy sugars, usually cladinose and desosamine, may be attached. Macrolides bind to the 50S-subunit of bacterial ribosomes, inhibiting the synthesis of vital proteins."}}, "ARO_name": "mphK", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42412", "model_name": "mphK", "model_type_id": "40292"}, "3131": {"model_id": "3131", "ARO_accession": "3004503", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 phosphoethanolamine transferase and polymyxin resistance gene variant identified in Aeromonas.", "model_sequences": {"sequence": {"4989": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATTAAAATTGTGCCGCTCATATTTTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAATATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAGTAAAGCCTTTTTTTGCACTTCTGATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTATTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCGTTAGCATATTTAAACTTACCAATTATAGGATGGGTTACTATTGCTGGTTTTATCCCTGCCATTTTACTTTTCTTTGTTGATATTGAATATGAGGAAAAATGGTTCAAAGGGATTCTAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCTGCACTATACTATCAAGATTATGTTTCAGTTGGGCGTAACAATTCAAACCTCCAGCGTGAAATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATATGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTCCTGGTCGTTGGTGAAACCGCTCGCGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGACACCAATCCATTTACCAGTAAATCTGGTGGCGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCTGTCCCCTGCATGTTCTCCAATATGGGGAGAAAGGAGTTTGATGATAATCTCGCTCGTAATAGCGAGGGTTTGTTAGATGTGTTGCAGAAAACGGGGGTCTCCATTTTTTGGAAGGAGAACGATGGCGGCTGCAAAGGCGTCTGCGACCGAGTTCCTAACATCGAGATCAAACCGAAGGATTACCCAAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGACCTCGACAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAACGCTACCCTGATGCTCATCGTCAGTTCACTCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACGGATTTCGTGATTGCAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCACGGTGAATCACTGGGAGCTATGGGGCTTTACCTGCACGGTACACCATACAAATTTGCACCGGATGATCAGACCCGCGTACCTATGCAGGTGTGGATGTCACCTGGTTTCATCAAAGAAAAAGGCATGAATATGGAATGTTTGCAGAAAAATGCCGCAGCCAATCGCTATTCTCATGACAACATATTTTCTTCTGTCCTGGGAATATGGGATGTGAAGACGGCTATCTACGAACAAGAATTAGATATCTTTAAGCAATGTCGGAATAATTGA", "fmax": "1623", "accession": "NG_055660.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Aeromonas", "NCBI_taxonomy_id": "642", "NCBI_taxonomy_cvterm_id": "37047"}, "protein_sequence": {"accession": "WP_042649074.1", "sequence": "MPSLIKIKIVPLIFFLALYFAFMLNWRGVLHFYEILYKLEYFKFGFAISLPILLVAALNFVFVPFSIRYLVKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLNLPIIGWVTIAGFIPAILLFFVDIEYEEKWFKGILTRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNLARNSEGLLDVLQKTGVSIFWKENDGGCKGVCDRVPNIEIKPKDYPKFCDKNTCYDEVVLQDLDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIAEMIAKLKTYEDKYNTALLYVSDHGESLGAMGLYLHGTPYKFAPDDQTRVPMQVWMSPGFIKEKGMNMECLQKNAAANRYSHDNIFSSVLGIWDVKTAIYEQELDIFKQCRNN"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.6", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42210", "model_name": "MCR-3.6", "model_type_id": "40292"}, "3130": {"model_id": "3130", "ARO_accession": "3004502", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-2 phosphoethanolamine transferase and polymyxin resistance gene variant identified in Moraxella isolated from pigs in Great Britain", "model_sequences": {"sequence": {"4988": {"dna_sequence": {"partial": "0", "sequence": "ATGACATCACAGCACTCTTGGTATCGCTACTCCATCAATCCTTTTGTACTGATGGGTTTGGTGGCGTTATTTTTGGCGGCAACAGCGAACCTGACATTTTTTGAAAAAGCGATGGCGGTCTATCCTGTATCGGATAACTTAGGCTTTATCATCTCAATGGCGGTTGCACTGATGGGTGCTATGCTATTGATTGTCGTGCTATTATCCTATCGCTATGTGCTAAAGCCTGTGCTGATTTTATTACTTATCATGGGTGCGGTGACGAGCTATTTTACCGATACTTATGGCACGGTCTATGATACCACCATGCTCCAAAATGCCATGCAAACCGACCAAGCTGAATCTAAAGACTTGATGAATTTGGCGTTTTTTGTGCGGATTATCGGGCTTGGCGTGTTGCCAAGTGTGTTGGTCGCATTTGCCAAAGTCAATTATCCAACATGGGGCAAAGGCCTGATTCAGCGTGCGATGACGTGGGGTGTCAGCCTTGTGCTGTTGCTTGTGCCGATTGGGCTATTTAGCAGTCAGTATGCGAGTTTCTTTCGGGTGCATAAGCCAGTGCGTTTTTATATCAATCCGATTACGCCGATTTATTCGGTGGGCAAGCTTGCCAGTATCGAGTACAAAAAAGCCACTGCACCAACAGACACCATCTATCATGCCAAAGATGCCGTGCAGACCACCAAGCCTAGCGAGCGTAAGCCACGCCTAGTAGTGTTCGTCGTCGGTGAGACGGCGCGTGCTGACCATGTGCAGTTCAATGGCTATGGCCGTGAGACTTTCCCACAGCTTGCCAAAGTTGATGGCTTGGCGAATTTTAGCCAAGTGACATCGTGTGGCACATCGACAGCGTATTCTGTGCCGTGTATGTTTAGCTATTTGGGTCAAGATGACTATGATGTCGATACCGCCAAATACCAAGAAAATGTGCTAGATACGCTTGACCGCTTGGGCGTGGATATCTTGTGGCGTGATAATAATTCAGACTCAAAAGGCGTGATGGATAAGCTACCTACCACGCAGTATTTTGATTATAAATCAGCGACCAACAACACCATCTGTAACACCAATCCCTTTAATGAATGCCGTGATGTCGGTATGCTTGTTGGGCTAGATGACTATGTCAGTGCCAATAATGGCAAAGATATGCTCATCATGCTACACCAAATGGGCAATCATGGGCCGGCGTACTTTAAGCGTTATGATGAGCAATTTGCCAAATTCACCCCTGTGTGCGAAGGCAATGAGCTTGCCAAATGCGAACACCAATCACTCATCAATGCCTATGATAATGCACTACTTGCCACCGATGATTTTATCGCCAAAAGTATCGATTGGCTAAAAACACATGAAGCAAACTACGATGTCGCTATGCTCTATGTCAGCGACCACGGCGAGAGCTTGGGCGAGAATGGTGTCTATCTGCATGGTATGCCAAATGCCTTTGCACCAAAAGAACAGCGAGCCGTGCCTGCGTTTTTTTGGTCAAATAATACGACATTCAAGCCAACTGCCAGCGACACTGTGCTGACGCATGATGCGATTACCCCGACATTGCTTAAGCTGTTTGATGTCACAGCCGACAAGGTCAAAGACCGCACGGCATTTATCCAGTAA", "fmax": "1717", "accession": "NG_055496.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Moraxella pluranimalium", "NCBI_taxonomy_id": "470453", "NCBI_taxonomy_cvterm_id": "42209"}, "protein_sequence": {"accession": "WP_078254299.1", "sequence": "MTSQHSWYRYSINPFVLMGLVALFLAATANLTFFEKAMAVYPVSDNLGFIISMAVALMGAMLLIVVLLSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNAMQTDQAESKDLMNLAFFVRIIGLGVLPSVLVAFAKVNYPTWGKGLIQRAMTWGVSLVLLLVPIGLFSSQYASFFRVHKPVRFYINPITPIYSVGKLASIEYKKATAPTDTIYHAKDAVQTTKPSERKPRLVVFVVGETARADHVQFNGYGRETFPQLAKVDGLANFSQVTSCGTSTAYSVPCMFSYLGQDDYDVDTAKYQENVLDTLDRLGVDILWRDNNSDSKGVMDKLPTTQYFDYKSATNNTICNTNPFNECRDVGMLVGLDDYVSANNGKDMLIMLHQMGNHGPAYFKRYDEQFAKFTPVCEGNELAKCEHQSLINAYDNALLATDDFIAKSIDWLKTHEANYDVAMLYVSDHGESLGENGVYLHGMPNAFAPKEQRAVPAFFWSNNTTFKPTASDTVLTHDAITPTLLKLFDVTADKVKDRTAFIQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-2.2", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42208", "model_name": "MCR-2.2", "model_type_id": "40292"}, "3133": {"model_id": "3133", "ARO_accession": "3004505", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 phosphoethanolamine transferase and polymyxin (colistin) resistance gene variant identified from an extensively-resistant Escherichia coli clinical isolate.", "model_sequences": {"sequence": {"4991": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTTCCGCTTATGTTCTTTTTGGCACTGTATTTTGCATTTGTGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAAGATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAATAAAGCCTTTTTTTGCACTTCTTATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCGTTAGCATATTTAAGCTTACCAATTATAGTATGGGTTACTATTGCTGGTTTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGGAAAAATGGTTCAAAGGGATTCTAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTGTCAGTGGGGCGCAACAATTCAAACCTCCAGCGTGAGATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATACGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTTCTGGTCGTTGGTGAAACCGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGACACCAATCCATTTACCAGTAAATCTGGTGGCGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCCGTCCCCTGCATGTTCTCCAATATGGGGAGAAAGGAGTTTGATGATAATCGCGCTCGCAATAGCGAGGGCCTGCTAGATGTGTTGCAAAAAACGGGGATCTCCATTTTTTGGAAGGAGAACGATGGAGGCTGCAAAGGCGTCTGCGACCGAGTACCTAACATCGAAATCGAACCAAAGGATCACCCTAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGACCTCGATAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAGCGCTACCCTGATGCTCATCGTCAGTTCACCCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACCGATTTCGTGATTGGAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCATGGTGAATCACTGGGAGAATTAGGGCTTTACCTACACGGTACACCGTACCAGTTTGCACCGGATGATCAGACCCGTGTTCCTATGCAGGTGTGGATGTCACCTGGATTTATCAAAGAGAAAGGCGTTGATATGGCGTGTTTGCAGCAGAAAGCCGCTGATACTCGTTACTCACACGATAATATTTTCTCATCTGTATTGGGTATCTGGGACGTCAAAACATCAGTTTACGAAAAGGGTCTAGATATTTTCAGTCAATGTCGTAATGTTCAATAA", "fmax": "1726", "accession": "NG_055782.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Enterobacteriaceae", "NCBI_taxonomy_id": "543", "NCBI_taxonomy_cvterm_id": "40532"}, "protein_sequence": {"accession": "WP_089613755.1", "sequence": "MPSLIKIKIVPLMFFLALYFAFVLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFVFVPFSIRYLIKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIVWVTIAGFIPAILLFFVEIEYEEKWFKGILTRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNRARNSEGLLDVLQKTGISIFWKENDGGCKGVCDRVPNIEIEPKDHPKFCDKNTCYDEVVLQDLDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIGEMIAKLKTYEDKYNTALLYVSDHGESLGELGLYLHGTPYQFAPDDQTRVPMQVWMSPGFIKEKGVDMACLQQKAADTRYSHDNIFSSVLGIWDVKTSVYEKGLDIFSQCRNVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.5", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42213", "model_name": "MCR-3.5", "model_type_id": "40292"}, "3132": {"model_id": "3132", "ARO_accession": "3004504", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 phosphoethanolamine transferase and polymyxin (colistin) resistance gene variant identified from Aeromonas, Proteus and Escherichia coli.", "model_sequences": {"sequence": {"4990": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTTCCGCTTATGTTCTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAAGATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAATAAAGCCTTTTTTTGCACTTCTTATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCGTTAGCATATTTAAGCTTACCAATTATAGGATGGGTTACTATTGCTGGTTTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGGAAAAATGGTTCAAAGGGATTCTAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTGTCAGTGGGGCGCAACAATTCAAACCTCCAGCGTGAGATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATACGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTTCTGGTCGTTGGTGAAACCGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGACACCAATCCATTTACCAGTAAATCTGGTGGCGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCTGTCCCCTGCATGTTTTCCAATATGGGGAGAAAGGAGTTTGATGATAATCTCGCTCGTAATAGCGAGGGTTTGTTAGATGTGTTGCAGAAAACGGGGGTCTCCATTTTTTGGAAGGAGAACGATGGAGGCTGCAAAGGCGTCTGCGACCGAGTTCCTAACATCGAGATCAAACCGAAGGATTACCCAAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGAGCTCGACAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAGCGCTACCCTGATGCTCATCGTCAGTTCACCCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACCGATTTCGTGATTGGAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCATGGTGAATCACTGGGAGCATTAGGGCTTTACCTACACGGTACACCGTACAAGTTTGCACCGGATGATCAGACCCGTGTTCCTATGCAGGTGTGGATGTCACCTGGATTTACCAAAGAGAAAGGCGTTGATATGGCGTGTTTGCAGCAGAAAGCCGCTGATACTCGTTACTCACACGATAATATTTTCTCATCTGTATTGGGTATCTGGGACGTCAAAACATCAGTTTACGAAAAGGGTCTAGATATTTTCAGTCAATGTCGTAATGTTCAATAA", "fmax": "1726", "accession": "NG_055799.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Aeromonas caviae", "NCBI_taxonomy_id": "648", "NCBI_taxonomy_cvterm_id": "36936"}, "protein_sequence": {"accession": "WP_099982820.1", "sequence": "MPSLIKIKIVPLMFFLALYFAFMLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFVFVPFSIRYLIKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIGWVTIAGFIPAILLFFVEIEYEEKWFKGILTRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNLARNSEGLLDVLQKTGVSIFWKENDGGCKGVCDRVPNIEIKPKDYPKFCDKNTCYDEVVLQELDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIGEMIAKLKTYEDKYNTALLYVSDHGESLGALGLYLHGTPYKFAPDDQTRVPMQVWMSPGFTKEKGVDMACLQQKAADTRYSHDNIFSSVLGIWDVKTSVYEKGLDIFSQCRNVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.10", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42212", "model_name": "MCR-3.10", "model_type_id": "40292"}, "3139": {"model_id": "3139", "ARO_accession": "3004511", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 polymyxin resistance gene variant identified in a colistin-resistant Salmonella isolate from Canada, located on an IncHI-2 plasmid", "model_sequences": {"sequence": {"4997": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTTCCGCTTATGTTCTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAAGATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAATAAAGCCTTTTTTTGCACTTCTTATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCGTTAGCATATTTAAGCTTACCAATTATAGTATGGGTTACTATTGCTGGTTTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGGAAAAATGGTTCAAAGGGATTCTAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTGTCAGTGGGGCGCAACAATTCAAACCTCCAGCGTGAGATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATACGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTTCTGGTCGTTGGTGAAACCGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGACACCAATCCATTTACCAGTAAATCTGGTGGCGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCCGTCCCCTGCATGTTCTCCAATATGGGGAGAAAGGAGTTTGATGATAATCGCGCTCGCAATAGCGAGGGCCTGCTAGATGTGTTGCAAAAAACGGGGATCTCCATTTTTTGGAAGGAGAACGATGGAGGCTGCAAAGGCGTCTGCGACCGAGTACCTAACATCGAAATCGAACCAAAGGATCACCCTAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGACCTCGATAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAGCGCTACCCTGATGCTCATCGTCAGTTCACCCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACCGATTTCGTGATTGGAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCATGGTGAATCACTGGGAGCATTAGGGCTTTACCTACACGGTACACCGTACCAGTTTGCACCGGATGATCAGACCCGTGTTCCTATGCAGGTGTGGATGTCACCTGGATTTATCAAAGAGAAAGGCGTTGATATGGCGTGTTTGCAGCAGAAAGCCGCTGATACTCGTTACTCACACGATAATATTTTCTCATCTGTATTGGGTATCTGGGACGTCAAAACATCAGTTTACGAAAAGGGTCTAGATATTTTCAGTCAATGTCGTAATGTTCAATAA", "fmax": "1726", "accession": "NG_055523.1", "fmin": "100", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Enterobacteriaceae", "NCBI_taxonomy_id": "543", "NCBI_taxonomy_cvterm_id": "40532"}, "protein_sequence": {"accession": "WP_094315354.1", "sequence": "MPSLIKIKIVPLMFFLALYFAFMLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFVFVPFSIRYLIKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIVWVTIAGFIPAILLFFVEIEYEEKWFKGILTRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNRARNSEGLLDVLQKTGISIFWKENDGGCKGVCDRVPNIEIEPKDHPKFCDKNTCYDEVVLQDLDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIGEMIAKLKTYEDKYNTALLYVSDHGESLGALGLYLHGTPYQFAPDDQTRVPMQVWMSPGFIKEKGVDMACLQQKAADTRYSHDNIFSSVLGIWDVKTSVYEKGLDIFSQCRNVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.2", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42220", "model_name": "MCR-3.2", "model_type_id": "40292"}, "3138": {"model_id": "3138", "ARO_accession": "3004510", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR polymyxin (colistin) resistance gene variant identified in Aeromonas", "model_sequences": {"sequence": {"4996": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTGCCGCTCATATTTTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATTCTTTATAAATTAGAAGATTTTAAATTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAATTTTGCATTTGTTCCATTTTCGATACGGTATTTAGTAAAGCCTTTTTTTGCACTTCTTATCGCACTTAGCGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCATTAGCATATTTAAGTTTGCCAATTATAGGATGGGTTACTATTGTTGGATTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGGAAAAATGGTTTAAAGGGATTCTAACTCGCGTCCTATCGATGTTTGCATCCCTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTTTCAGTGGGGCGCAACAATTCAAACCTCCAGCGTGAAATTGTTCCGGCCAATTTTGTTAATAGTACCGTTAAATATGTTTATAATCGTTATCTTGCAGAACCAATCCCATTTACTACTTTAGGTGATGATGCAAAACGGGATACTAATAAAAGTAAGCCCACGTTGATGTTCCTGGTCGTTGGTGAAACTGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGATACCAACCCATTTACCAGTAAATCTGGTGGTGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACAGCAACCGCTGTATCTGTCCCCTGCATGTTCTCCAATATGGGGAGAAAGGAGTTTGATGATAATCTCGCTCGTAATAGCGAGGGTTTGTTAGATGTGTTGCAGAAAACGGGGGTCTCCATTTTTTGGAAGGAGAACGATGGCGGCTGCAAAGGCGTCTGCGACCGAGTACCTAACATCGAGGTCAAACCGAAGGATTACCCAAAGTTCTGCGATAAAAATACATGCTATGACGAGGTTGTCCTTCAAGACCTCGATAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAGCGCTATCCTGATGCTCATCGTCAGTTCACCCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACGGATTTCGTGATTGCAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCATGGTGAATCACTGGGAGCTATGGGGCTTTACCTGCACGGTACACCGTACAAGTTTGCACCGGATGATCAGACCCGCGTACCTATGCAGGTGTGGATGTCACCTGGATTTACCAAAGAGAAAGGCATGAATATGGAATGTTTGCAGCAGAAAGCCGCTGATACTCGTTACTCACACGATAATATTTTCTCATCTGTATTGGGTATCTGGGACGTCAAAACATCAGTTTACGAAAAGGGTCTAGATATTTTCAGTCAATGTCGTAATGTTCAATAA", "fmax": "1719", "accession": "NG_055661.1", "fmin": "93", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Aeromonas media", "NCBI_taxonomy_id": "651", "NCBI_taxonomy_cvterm_id": "39526"}, "protein_sequence": {"accession": "WP_099156047.1", "sequence": "MPSLIKIKIVPLIFFLALYFAFMLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFAFVPFSIRYLVKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIGWVTIVGFIPAILLFFVEIEYEEKWFKGILTRVLSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNKSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNLARNSEGLLDVLQKTGVSIFWKENDGGCKGVCDRVPNIEVKPKDYPKFCDKNTCYDEVVLQDLDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIAEMIAKLKTYEDKYNTALLYVSDHGESLGAMGLYLHGTPYKFAPDDQTRVPMQVWMSPGFTKEKGMNMECLQQKAADTRYSHDNIFSSVLGIWDVKTSVYEKGLDIFSQCRNVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.7", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42219", "model_name": "MCR-3.7", "model_type_id": "40292"}, "3013": {"model_id": "3013", "ARO_accession": "3004493", "model_param": {"blastp_bit_score": {"param_value": "700", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A class C carbapenemase and extended-spectrum beta-lactamase identified from Acinetobacter baumannii", "model_sequences": {"sequence": {"4869": {"dna_sequence": {"partial": "0", "sequence": "ATGCGATTTAAAAAAATTTCTTGTCTACTTTTATCCCCGCTTTTTATTTTTAATACCTCAATTTATGCGGGCAATACACCAAAAGACCAAGAAATTAAAAAACTGGTAGATCAAAACTTTAAACCGTTATTAGAAAAATATGATGTGCCAGGTATGGCTGTGGGTGTTATTCAAAATAATAAAAAGTATGAAATGTATTATGGTCTTCAATCTGTTCAAGATAAAAAAGCCGTAAATAGCAGTACCATTTTTGAGCTAGGTTCTGTCAGTAAATTATTTACCGCGACAGCAGGTGCTTATGCAAAAAATAAAGGAAAAATCTCTTTTGACGATACGCCTGGTAAATATTGGAAAGAGCTAAAAAATACACCGATTGACCAAGTTAACTTACTTCAACTCGCGACGTATACAAGTGGTAACCTTGCCTTGCAGTTCCCTGATGAAGTACAAACAGACCAACAAGTTTTAACTTTTTTCAAAGACTGGAAACCTAAAAACCCAATCGGTGAATACAGACAATATTCAAATCCAAGTATTGGCTTATTTGGAAAAGTTGTTGCTTTGTCTATGAATAAACCTTTCGATCAAGTCTTAGAAAAAATAATTTTTCCGGCCCTTGGCTTAAAACATAGCTATGTAAATGTAGCTAAGACCCAAATGCAAAACTATGCTTTTGGCTATAACCAAGAAAATCAGCCGATTCGAGTTAACCCCGGCCCACTCGATGCCCCAGCATATGGCGTCAAATCGACACTACCCGACATGTTGAGTTTTATTCATGCCAACCTAAATCCACAAAAATATCCGGCTGATATTCAACGTGCAATTAATGAAACACATCAGGGTCGCTATCAAGTAAATACCATGTATCAGGCACTCGGTTGGGAAGAGTTTTCTTATCCGGCAACGTTACAAACTTTATTAGACAGTAATTCAGAACAGATTGTGATGAAACCTAATAAAGTGACTGCTATTTCAAAAGAGCCTTCAGTTAAGATGTACCATAAAACTGGCTCAACCAACGGTTTCGGAACATATGTGGTGTTTATTCCTAAAGAAAATATTGGTTTAGTCATGTTAACCAATAAACGTATTCCAAATGAAGAGCGCATTAAGGCAGCTTATGCTGTGCTGAATGCAATAAAGAAATAA", "fmax": "1152", "accession": "KC866352.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Acinetobacter baumannii", "NCBI_taxonomy_id": "470", "NCBI_taxonomy_cvterm_id": "35507"}, "protein_sequence": {"accession": "AGL39360.1", "sequence": "MRFKKISCLLLSPLFIFNTSIYAGNTPKDQEIKKLVDQNFKPLLEKYDVPGMAVGVIQNNKKYEMYYGLQSVQDKKAVNSSTIFELGSVSKLFTATAGAYAKNKGKISFDDTPGKYWKELKNTPIDQVNLLQLATYTSGNLALQFPDEVQTDQQVLTFFKDWKPKNPIGEYRQYSNPSIGLFGKVVALSMNKPFDQVLEKIIFPALGLKHSYVNVAKTQMQNYAFGYNQENQPIRVNPGPLDAPAYGVKSTLPDMLSFIHANLNPQKYPADIQRAINETHQGRYQVNTMYQALGWEEFSYPATLQTLLDSNSEQIVMKPNKVTAISKEPSVKMYHKTGSTNGFGTYVVFIPKENIGLVMLTNKRIPNEERIKAAYAVLNAIKK"}}}}, "ARO_category": {"35939": {"category_aro_name": "carbapenem", "category_aro_cvterm_id": "35939", "category_aro_accession": "0000020", "category_aro_class_name": "Drug Class", "category_aro_description": "Carbapenems are a class of beta-lactam antibiotics with a broad spectrum of antibacterial activity, and have a structure which renders them highly resistant to beta-lactamases. Carbapenem antibiotics are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "42444": {"category_aro_name": "ADC beta-lactamase with carbapenemase activity", "category_aro_cvterm_id": "42444", "category_aro_accession": "3004545", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "ADC beta-lactamase enzymes with demonstrable carbapenemase activity, an exception amongst these enzymes."}}, "ARO_name": "ADC-68", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42027", "model_name": "ADC-68", "model_type_id": "40292"}, "3220": {"model_id": "3220", "ARO_accession": "3004544", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A chromosomal macrolide phosphotransferase identified in Brevibacillus brevis VM4.", "model_sequences": {"sequence": {"5086": {"dna_sequence": {"partial": "0", "sequence": "ATGTCAAAAAACAATGTAGAGCACATGCTTGCACTCGCGAAAAATAACGGAATCCTGGTAGACCCCACTACCGTGAAAGTGAATGAATCCGGCTTGGATTTTCTTGCGATTTTTGCAAGTACGATAGATGGTATTCCATGGGTATTACGGCAACCGCGCCGGGACGATGTTGTGGAGACAGCGCGTTATGAGAAAAGGGTGCTAGATCTCGTTGCAAAACATCTGCGTGTCGAAGTACCGGATTGGCAGGTTCACACCTCTGAATTCATCGCTTATCCGATCCTGGGTGGCACACCGATGGCGACGATCAATATGGAAACCAAAAATTATGACTGGTATTTGAATCCCGAATCCCTACCCGAACTGTGCATCCAAACGTGGGCGGAAGCATTGGTGGAATTACACGGTATTCATCATGATCTCGCTCGAGATGCTGGTATCCGCGTCAAGCAGCCTAGCTATGCACGAGCAAGCCTTCGAGAAAAGATGAATGAAATCAAACGCGTCTTTGGCGTTTCTGGGGCGCTATGGGATCGATGGCAAAAATGGCTTGCAGATGAAACATTCTGGCCTGCTCACTCTGCACTTGTGCATGGTGACCTCCATCCGGGGCATATCCTGGTTGCTGAAAACGGCAAGGTAACAGGACTCCTGGATTGGACGGAGGCAGAAGTCTCTGACCCTGCTATTGATTTCACGGTCGTATACCTGTTGTTCGGAGATACTGGCTTGGCCGATTTCATCCAACGGTATGAGAAAGCAGGAGGCCGTGTATGGTCGCGTATGCATGAGCATATCGTCGAAATGACGGCTGCGTATCCCGTCACTCTTGCTACCTTCGCATTGAAATCAGGGCTGGAAGAGTTCAAGATCATGGCACGACAAGCTCTGGGTGTCGACGAGAACGGCAAAGAGATCACTTCCTAG", "fmax": "927", "accession": "KY753883.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Brevibacillus brevis Vm4", "NCBI_taxonomy_id": "1289602", "NCBI_taxonomy_cvterm_id": "41526"}, "protein_sequence": {"accession": "ATL63232.1", "sequence": "MSKNNVEHMLALAKNNGILVDPTTVKVNESGLDFLAIFASTIDGIPWVLRQPRRDDVVETARYEKRVLDLVAKHLRVEVPDWQVHTSEFIAYPILGGTPMATINMETKNYDWYLNPESLPELCIQTWAEALVELHGIHHDLARDAGIRVKQPSYARASLREKMNEIKRVFGVSGALWDRWQKWLADETFWPAHSALVHGDLHPGHILVAENGKVTGLLDWTEAEVSDPAIDFTVVYLLFGDTGLADFIQRYEKAGGRVWSRMHEHIVEMTAAYPVTLATFALKSGLEEFKIMARQALGVDENGKEITS"}}}}, "ARO_category": {"36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "36472": {"category_aro_name": "macrolide phosphotransferase (MPH)", "category_aro_cvterm_id": "36472", "category_aro_accession": "3000333", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Macrolide phosphotransferases (MPH) are enzymes encoded by macrolide phosphotransferase genes (mph genes). These enzymes phosphorylate macrolides in GTP dependent manner at 2'-OH of desosamine sugar thereby inactivating them. Characterized MPH's are differentiated based on their substrate specificity."}, "35919": {"category_aro_name": "macrolide antibiotic", "category_aro_cvterm_id": "35919", "category_aro_accession": "0000000", "category_aro_class_name": "Drug Class", "category_aro_description": "Macrolides are a group of drugs (typically antibiotics) that have a large macrocyclic lactone ring of 12-16 carbons to which one or more deoxy sugars, usually cladinose and desosamine, may be attached. Macrolides bind to the 50S-subunit of bacterial ribosomes, inhibiting the synthesis of vital proteins."}}, "ARO_name": "mphJ", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42417", "model_name": "mphJ", "model_type_id": "40292"}, "3014": {"model_id": "3014", "ARO_accession": "3004494", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An IMP class B metallo-beta-lactamase enzyme identified from Acinetobacter baumannii.", "model_sequences": {"sequence": {"4870": {"dna_sequence": {"partial": "0", "sequence": "ATGAGCAAGTTATCTGTATTCTTTATATTTTTGATTTGCAGCATTGCTACCGCAGCAGAGTCTTTGCCAGATTTAAAAATTGAAAAGCTTGAAGAAGGCGTTTATGTTCATACTTCGTTTAAAGAAGTTAACGGGTGGGGCGTTGTTCCTAAACATGGTTTGGTGGTTCTTGTAAATGCTGAGGCTTACCTAATTGACACTCCATTTACGGCTAAAGATACTGAAAAGTTAGTCACTTGGTTTGTGGAGCGTGGCTATAAAATAAAAGGCAGCATTTCCTCTCATTTTCATAGCGACAGCACGGGCGGAATAGAGTGGCTTAATTCTCGATCTATCCCCACGTATGCATCTGAATTAACAAATGAACTGCTTAAAAAAGACGGTAAGGTTCAAGCCACAAATTCATTTAGCGGAGTTAACTATTGGCTAGTTAAAAATAAAATTGAAGTTTTTTATCCAGGCCCGGGACACACTCCAGATAACGTAGTGGTTTGGTTGCCTGAAAGGAAAATATTTTTCGGTGGTTGTTTTATTAAACCGTACGGTTTAGGCAAATTGGGTGACGCAAATATAGAAGCTTGGCCAAAGTCCGCCAAATTATTAAAGTCCAAATATGGTAAGGCAAAACTGGTTGTTCCAAGTCACAGTGAAGTTGGAGACGCATCACTCTTGAAACTTACATTAGAGCAGGCGGTTAAAGGGTTAAACGAAAGTAAAAAACCATCAAAACCAAGCAACTAA", "fmax": "741", "accession": "NG_049217.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Acinetobacter baumannii", "NCBI_taxonomy_id": "470", "NCBI_taxonomy_cvterm_id": "35507"}, "protein_sequence": {"accession": "WP_063860616.1", "sequence": "MSKLSVFFIFLICSIATAAESLPDLKIEKLEEGVYVHTSFKEVNGWGVVPKHGLVVLVNAEAYLIDTPFTAKDTEKLVTWFVERGYKIKGSISSHFHSDSTGGIEWLNSRSIPTYASELTNELLKKDGKVQATNSFSGVNYWLVKNKIEVFYPGPGHTPDNVVVWLPERKIFFGGCFIKPYGLGKLGDANIEAWPKSAKLLKSKYGKAKLVVPSHSEVGDASLLKLTLEQAVKGLNESKKPSKPSN"}}}}, "ARO_category": {"36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "40360": {"category_aro_name": "penem", "category_aro_cvterm_id": "40360", "category_aro_accession": "3003706", "category_aro_class_name": "Drug Class", "category_aro_description": "Penems are a class of unsaturated beta-lactam antibiotics with a broad spectrum of antibacterial activity and have a structure which renders them highly resistant to beta-lactamases. All penems are all synthetically made and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. They are structurally similar to carbapenems, however, where carbapenems have a carbon, penems have a sulfur."}, "35939": {"category_aro_name": "carbapenem", "category_aro_cvterm_id": "35939", "category_aro_accession": "0000020", "category_aro_class_name": "Drug Class", "category_aro_description": "Carbapenems are a class of beta-lactam antibiotics with a broad spectrum of antibacterial activity, and have a structure which renders them highly resistant to beta-lactamases. Carbapenem antibiotics are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36029": {"category_aro_name": "IMP beta-lactamase", "category_aro_cvterm_id": "36029", "category_aro_accession": "3000020", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Plasmid mediated IMP-type carbapenemases, of which at least 26 varieties are currently known, became established in Japan in the 1990s in enteric gram-negative organisms, Pseudomonas and Acinetobacter species. Integron-associated, sometimes within plasmids. Hydrolyses all beta-lactams except monobactams, and evades all beta-lactam inhibitors."}, "35962": {"category_aro_name": "cephamycin", "category_aro_cvterm_id": "35962", "category_aro_accession": "0000044", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephamycins are a group of beta-lactam antibiotics, very similar to cephalosporins. Together with cephalosporins, they form a sub-group of antibiotics known as cephems. Cephamycins are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms. The 7-alpha-methoxy group increases resistance to beta-lactamases."}}, "ARO_name": "IMP-55", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42028", "model_name": "IMP-55", "model_type_id": "40292"}, "3015": {"model_id": "3015", "ARO_accession": "3004495", "model_param": {"blastp_bit_score": {"param_value": "500", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An IMP class B metallo-beta-lactamase enzyme identified from carbapenem-resistant Pseudomonas aeruginosa", "model_sequences": {"sequence": {"4871": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAAAATTATTTGTTTTATGTGTATTCTTCCTTTGCAACATTGCTGCTGCAGATGATTCTTTGCCTGATTTAAAAATTGAGAAGCTTGAAAAAGGCGTTTATGTTCATACTTCGTTTGAAGAAGTTAAAGGTTGGGGTGTAGTCACAAAACACGGTTTAGTGGTTCTTGTAAAGAATGATGCTTATCTGATAGATACTCCAATTACCGCTAAAGATACTGAAAAATTAGTTAATTGGTTTATTGAGCACGGCTATAGAATCAAAGGCAGTATTTCCACACATTTCCATGGCGACAGTACGGCTGGAATAGAGTGGCTTAATTCTCAATCTATCTCCACGTATGCCTCTGAATTAACAAATGAACTTCTAAAAAAAGACAATAAGGTGCAAGCTACAAATTCTTTTAGTGGAGTTAGTTATTCACTTATCAAAAACAAAATTGAAGTTTTCTATCCAGGTCCAGGACACACTCAAGATAACGTAGTGGTTTGGTTACCTGAAAAGAAAATTTTATTCGGTGGTTGCTTTGTTAAACCGGACGGTCTTGGAAATTTAGGGGATGCAAATTTAGAAGCTTGGCCAAAGTCCGCTAAAATATTAATGTCTAAATATGGTAAAGCAAAACTGGTTGTTTCAGGTCATAGTGAAATTGGAAACGCATCACTCTTGCAGCGCACATGGGAGCAGGCTGTTAAAGGGTTAAATGAAAGTAAAAAACCGTTACAGCCAAGTAGCTAA", "fmax": "741", "accession": "NG_049218.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}, "protein_sequence": {"accession": "WP_063860617.1", "sequence": "MKKLFVLCVFFLCNIAAADDSLPDLKIEKLEKGVYVHTSFEEVKGWGVVTKHGLVVLVKNDAYLIDTPITAKDTEKLVNWFIEHGYRIKGSISTHFHGDSTAGIEWLNSQSISTYASELTNELLKKDNKVQATNSFSGVSYSLIKNKIEVFYPGPGHTQDNVVVWLPEKKILFGGCFVKPDGLGNLGDANLEAWPKSAKILMSKYGKAKLVVSGHSEIGNASLLQRTWEQAVKGLNESKKPLQPSS"}}}}, "ARO_category": {"36017": {"category_aro_name": "penam", "category_aro_cvterm_id": "36017", "category_aro_accession": "3000008", "category_aro_class_name": "Drug Class", "category_aro_description": "Penams, often referred to as penicillins, are a group of antibiotics derived from Penicillium fungi. Penicillin antibiotics are historically significant because they are the first drugs that were effective against many previously serious diseases such as syphilis and Staphylococcus infections. Penicillins are still widely used today, though many types of bacteria are now resistant. All penicillins are beta-lactam antibiotics in the penam sub-group, and are used in the treatment of bacterial infections caused by susceptible, usually Gram-positive, organisms."}, "36000": {"category_aro_name": "antibiotic inactivation", "category_aro_cvterm_id": "36000", "category_aro_accession": "0001004", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Enzymatic inactivation of antibiotic to confer drug resistance."}, "40360": {"category_aro_name": "penem", "category_aro_cvterm_id": "40360", "category_aro_accession": "3003706", "category_aro_class_name": "Drug Class", "category_aro_description": "Penems are a class of unsaturated beta-lactam antibiotics with a broad spectrum of antibacterial activity and have a structure which renders them highly resistant to beta-lactamases. All penems are all synthetically made and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. They are structurally similar to carbapenems, however, where carbapenems have a carbon, penems have a sulfur."}, "35939": {"category_aro_name": "carbapenem", "category_aro_cvterm_id": "35939", "category_aro_accession": "0000020", "category_aro_class_name": "Drug Class", "category_aro_description": "Carbapenems are a class of beta-lactam antibiotics with a broad spectrum of antibacterial activity, and have a structure which renders them highly resistant to beta-lactamases. Carbapenem antibiotics are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "35951": {"category_aro_name": "cephalosporin", "category_aro_cvterm_id": "35951", "category_aro_accession": "0000032", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephalosporins are a class of beta-lactam antibiotics, containing the beta-lactam ring fused with a dihydrothiazolidine ring. Together with cephamycins they belong to a sub-group called cephems. Cephalosporin are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms."}, "36029": {"category_aro_name": "IMP beta-lactamase", "category_aro_cvterm_id": "36029", "category_aro_accession": "3000020", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Plasmid mediated IMP-type carbapenemases, of which at least 26 varieties are currently known, became established in Japan in the 1990s in enteric gram-negative organisms, Pseudomonas and Acinetobacter species. Integron-associated, sometimes within plasmids. Hydrolyses all beta-lactams except monobactams, and evades all beta-lactam inhibitors."}, "35962": {"category_aro_name": "cephamycin", "category_aro_cvterm_id": "35962", "category_aro_accession": "0000044", "category_aro_class_name": "Drug Class", "category_aro_description": "Cephamycins are a group of beta-lactam antibiotics, very similar to cephalosporins. Together with cephalosporins, they form a sub-group of antibiotics known as cephems. Cephamycins are bactericidal, and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. The peptidoglycan layer is important for cell wall structural integrity, especially in Gram-positive organisms. The 7-alpha-methoxy group increases resistance to beta-lactamases."}}, "ARO_name": "IMP-56", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42029", "model_name": "IMP-56", "model_type_id": "40292"}, "3136": {"model_id": "3136", "ARO_accession": "3004508", "model_param": {"blastp_bit_score": {"param_value": "1000", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "An MCR-3 polymyxin (incl. colistin) resistance gene variant isolated from an Aeromonas isolate", "model_sequences": {"sequence": {"4994": {"dna_sequence": {"partial": "0", "sequence": "ATGCCTTCCCTTATAAAAATAAAAATTGTTCCGCTTATATTTTTTTTGGCACTGTATTTTGCATTTATGCTGAACTGGCGTGGAGTTCTCCATTTTTACGAAATCCTTTACAAATTAGAAGATTTTAAGTTTGGTTTCGCCATTTCATTACCAATATTGCTTGTTGCAGCGCTTAACTTTGTATTTGTTCCATTTTCGATACGGTATTTAGTAAAGCCTTTTTTTGCACTTCTGATCGCACTTAGTGCAATCGTTAGTTACACAATGATGAAGTATAGAGTCTTGTTTGATCAAAACATGATTCAGAATATTTTTGAAACCAATCAAAATGAGGCCTTAGCATATTTAAGCTTACCAATTATAGGATGGGTTACTATTGCTGGCTTTATCCCTGCCATTTTACTTTTCTTTGTTGAAATTGAATATGAGAAAAAATGGTTCAAAGGGATTATAACTCGTGCCCTATCGATGTTTGCATCACTTATAGTGATTGCGGTTATTGCAGCACTATACTATCAAGATTATGTGTCAGTGGGGCGCAACAATTCAAACCTCCAGCGTGAGATTGTTCCAGCCAATTTCGTTAATAGTACCGTTAAATACGTTTACAATCGTTATCTTGCTGAACCAATCCCATTTACAACTTTAGGTGATGATGCAAAACGGGATACTAATCAAAGTAAGCCCACGTTGATGTTTCTGGTCGTTGGTGAAACCGCTCGTGGTAAAAATTTCTCGATGAATGGCTATGAGAAAGATACCAACCCATTCACAAGTAAGTCTGGTGGTGTGATCTCCTTTAATGATGTTCGTTCGTGTGGGACTGCAACCGCTGTATCTGTCCCCTGCATGTTTTCCAATATGGGGAGAAAGGAGTTTGATGATAATCTCGCTCGTAATAGCGAGGGTTTGTTAGATGTGTTGCAGAAAACGGGGGTCTCCATTTTTTGGAAGGAGAACGATGGCGGCTGCAAAGGCGTCTGCGACCGAGTTCCTAACATCGAGATCAAACCGAAGGATTACCCAAAGTTCTGCGATAAAAACACATGCTATGACGAGGTTGTCCTTCAAGAGCTCGACAGTGAAATTGCTCAAATGAAAGGGGATAAGCTGGTTGGCTTCCACCTGATAGGTAGCCATGGCCCAACCTACTACAAGCGCTACCCTGATGCTCATCGTCAGTTCACCCCTGACTGTCCACGCAGTGATATTGAAAACTGCACAGATGAAGAGCTCACCAACACCTATGACAACACCATCCGCTACACCGATTTCGTGATTGGAGAGATGATTGCCAAGTTGAAAACCTACGAAGATAAGTACAACACCGCGTTGCTCTACGTCTCCGATCATGGTGAATCACTGGGAGCATTAGGGCTTTACCTACACGGTACACCGTACAAGTTTGCACCGGATGATCAGACCCGTGTTCCTATGCAGGTGTGGATGTCACCTGGATTTACCAAAGAGAAAGGCGTTGATATGGCGTGTTTGCAGCAGAAAGCCGCTGATACTCGTTACTCACACGATAATATTTTCTCATCTGTATTGGGTATCTGGGACGTCAAAACATCAGTTTACGAAAAGGGTCTAGATATTTTCAGTCAATGTCGTAATGTTCAATAA", "fmax": "1626", "accession": "NG_055663.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Aeromonas hydrophila", "NCBI_taxonomy_id": "644", "NCBI_taxonomy_cvterm_id": "36810"}, "protein_sequence": {"accession": "WP_099156049.1", "sequence": "MPSLIKIKIVPLIFFLALYFAFMLNWRGVLHFYEILYKLEDFKFGFAISLPILLVAALNFVFVPFSIRYLVKPFFALLIALSAIVSYTMMKYRVLFDQNMIQNIFETNQNEALAYLSLPIIGWVTIAGFIPAILLFFVEIEYEKKWFKGIITRALSMFASLIVIAVIAALYYQDYVSVGRNNSNLQREIVPANFVNSTVKYVYNRYLAEPIPFTTLGDDAKRDTNQSKPTLMFLVVGETARGKNFSMNGYEKDTNPFTSKSGGVISFNDVRSCGTATAVSVPCMFSNMGRKEFDDNLARNSEGLLDVLQKTGVSIFWKENDGGCKGVCDRVPNIEIKPKDYPKFCDKNTCYDEVVLQELDSEIAQMKGDKLVGFHLIGSHGPTYYKRYPDAHRQFTPDCPRSDIENCTDEELTNTYDNTIRYTDFVIGEMIAKLKTYEDKYNTALLYVSDHGESLGALGLYLHGTPYKFAPDDQTRVPMQVWMSPGFTKEKGVDMACLQQKAADTRYSHDNIFSSVLGIWDVKTSVYEKGLDIFSQCRNVQ"}}}}, "ARO_category": {"36192": {"category_aro_name": "peptide antibiotic", "category_aro_cvterm_id": "36192", "category_aro_accession": "3000053", "category_aro_class_name": "Drug Class", "category_aro_description": "Peptide antibiotics have a wide range of antibacterial mechanisms, depending on the amino acids that make up the antibiotic, although most act to disrupt the cell membrane in some manner. Subclasses of peptide antibiotics can include additional sidechains of other types, such as lipids in the case of the lipopeptide antibiotics."}, "41432": {"category_aro_name": "MCR phosphoethanolamine transferase", "category_aro_cvterm_id": "41432", "category_aro_accession": "3004268", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A group of mobile colistin resistance genes encode the MCR family of phosphoethanolamine transferases, which catalyze the addition of phosphoethanolamine onto lipid A, thus interfering with the binding of colistin to the cell membrane."}, "35997": {"category_aro_name": "antibiotic target alteration", "category_aro_cvterm_id": "35997", "category_aro_accession": "0001001", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Mutational alteration or enzymatic modification of antibiotic target which results in antibiotic resistance."}, "36968": {"category_aro_name": "colistin B", "category_aro_cvterm_id": "36968", "category_aro_accession": "3000624", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin B, or polymyxin E2, has a 6-heptanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}, "36966": {"category_aro_name": "colistin A", "category_aro_cvterm_id": "36966", "category_aro_accession": "3000622", "category_aro_class_name": "Antibiotic", "category_aro_description": "Colistin A, or polymyxin E1, has a 6-octanoic acid lipid tail. Polymyxins disrupt the cell membrane of Gram-negative bacteria."}}, "ARO_name": "MCR-3.9", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42217", "model_name": "MCR-3.9", "model_type_id": "40292"}, "3076": {"model_id": "3076", "ARO_accession": "3004498", "model_param": {"blastp_bit_score": {"param_value": "150", "param_type_id": "40725", "param_type": "BLASTP bit-score", "param_description": "A score is a numerical value that describes the overall quality of an alignment with higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (\u03bb \u00d7 S \u2212 lnK)/ ln2 where \u03bb is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bit-score parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences."}}, "ARO_description": "A trimethoprim-resistant dihydrofolate reductase characterized on a class I integron from an E. coli isolate.", "model_sequences": {"sequence": {"4934": {"dna_sequence": {"partial": "1", "sequence": "ATGAATGAAGGAAAAAATGAGGTCAGTACTTCAGCTGCTGGCCGGTTCGCATTCCCATCAAACGCCACGTTTGCCTTGGGGGATCGCGTACGCAAGAAGTCTGGCGCTGCTTGGCAGGGGCGCATTGTCGGGTGGTACTGCACAACACTTACCCCTGAAGGCTACGCCGTCGAGTCCGAATCTCACCCAGGCTCAGTCCAGATTTATCCCATGACTGCGCTTGAACGGGTGGCCTGA", "fmax": "311", "accession": "KP314737.1", "fmin": "74", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "AKF12264.1", "sequence": "MNEGKNEVSTSAAGRFAFPSNATFALGDRVRKKSGAAWQGRIVGWYCTTLTPEGYAVESESHPGSVQIYPMTALERVA"}}}}, "ARO_category": {"36476": {"category_aro_name": "iclaprim", "category_aro_cvterm_id": "36476", "category_aro_accession": "3000337", "category_aro_class_name": "Antibiotic", "category_aro_description": "Iclaprim is a bactericidal compound that inhibits dihydrofolate reductase. It is used against clinically important Gram-positive pathogens, including methicillin-sensitive Staphylococcus aureus and methicillin-resistant S. aureus."}, "36327": {"category_aro_name": "trimethoprim", "category_aro_cvterm_id": "36327", "category_aro_accession": "3000188", "category_aro_class_name": "Antibiotic", "category_aro_description": "Trimethoprim is a synthetic 5-(3,4,5- trimethoxybenzyl) pyrimidine inhibitor of dihydrofolate reductase, inhibiting synthesis of tetrahydrofolic acid. Tetrahydrofolic acid is an essential precursor in the de novo synthesis of the DNA nucleotide thymidine. Trimethoprim is a bacteriostatic antibiotic mainly used in the prophylaxis and treatment of urinary tract infections in combination with sulfamethoxazole, a sulfonamide antibiotic."}, "36408": {"category_aro_name": "brodimoprim", "category_aro_cvterm_id": "36408", "category_aro_accession": "3000269", "category_aro_class_name": "Antibiotic", "category_aro_description": "Brodimoprim is a structural derivative of trimethoprim and an inhibitor of bacterial dihydrofolate reductase. The 4-methoxy group of trimethoprim is replaced with a bromine atom."}, "37617": {"category_aro_name": "trimethoprim resistant dihydrofolate reductase dfr", "category_aro_cvterm_id": "37617", "category_aro_accession": "3001218", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Alternative dihydropteroate synthase dfr present on plasmids produces alternate proteins that are less sensitive to trimethoprim from inhibiting its role in folate synthesis, thus conferring trimethoprim resistance."}, "36310": {"category_aro_name": "diaminopyrimidine antibiotic", "category_aro_cvterm_id": "36310", "category_aro_accession": "3000171", "category_aro_class_name": "Drug Class", "category_aro_description": "Diaminopyrimidines are a class of organic compounds containing a pyrimidine ring substituted by two amine groups.  They are inhibitors of dihydrofolate reductase, an enzyme critical for DNA synthesis."}, "35998": {"category_aro_name": "antibiotic target replacement", "category_aro_cvterm_id": "35998", "category_aro_accession": "0001002", "category_aro_class_name": "Resistance Mechanism", "category_aro_description": "Replacement or substitution of antibiotic action target, which process will result in antibiotic resistance."}, "36423": {"category_aro_name": "tetroxoprim", "category_aro_cvterm_id": "36423", "category_aro_accession": "3000284", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetroxoprim is a trimethoprim derivative that inhibits bacterial dihydrofolate reductase."}}, "ARO_name": "dfrB4", "model_type": "protein homolog model", "model_description": "The protein homolog model is an AMR detection model. Protein homolog models detect a protein sequence based on its similarity to a curated reference sequence. A protein homolog model has only one parameter: a curated BLASTP bitscore cutoff for determining the strength of a match. Protein homolog model matches to reference sequences are categorized on three criteria: perfect, strict and loose. A perfect match is 100% identical to the reference sequence along its entire length; a strict match is not identical but the bitscore of the matched sequence is greater than the curated BLASTP bitscore cutoff. Loose matches are other sequences with a match bitscore less than the curated BLASTP bitscore.", "ARO_id": "42133", "model_name": "dfrB4", "model_type_id": "40292"}}}