{"$update": {"882": {"$update": {"model_name": "class A Rhodobacter capsulatus beta-lactamase", "ARO_name": "class A Rhodopseudomonas capsulata beta-lactamase"}}, "627": {"$update": {"ARO_category": {"$insert": {"36520": {"category_aro_name": "antibiotic target replacement protein", "category_aro_cvterm_id": "36520", "category_aro_accession": "3000381", "category_aro_description": "Alternate proteins that have the same functions as other antibiotic target proteins, but are structurally different and thus resistant to antibiotics. These can replace the activity of other antibiotic-sensitive proteins in the presence of antibiotics."}}}}}, "431": {"$update": {"model_param": {"$update": {"snp": {"$update": {"param_value": {"$insert": {"8206": "R58L"}}, "clinical": {"$insert": {"8206": "R58L"}}}}}}}}, "1302": {"$update": {"ARO_category": {"$insert": {"36696": {"category_aro_name": "antibiotic inactivation enzyme", "category_aro_cvterm_id": "36696", "category_aro_accession": "3000557", "category_aro_description": "Enzyme that catalyzes the inactivation of an antibiotic resulting in resistance.  Inactivation includes chemical modification, destruction, etc."}}}}}, "624": {"$update": {"ARO_category": {"$insert": {"36520": {"category_aro_name": "antibiotic target replacement protein", "category_aro_cvterm_id": "36520", "category_aro_accession": "3000381", "category_aro_description": "Alternate proteins that have the same functions as other antibiotic target proteins, but are structurally different and thus resistant to antibiotics. These can replace the activity of other antibiotic-sensitive proteins in the presence of antibiotics."}}}}}, "1847": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "900"}}}}}}, "1206": {"$update": {"ARO_description": "QepA is a plasmid-mediated efflux pump in E. coli, shown to contribute to fluoroquinolone resistance. It is regulated by sox genes, also known as global stress regulators.", "ARO_name": "QepA"}}, "1200": {"$update": {"model_sequences": {"$update": {"sequence": {"4185": {"dna_sequence": {"fmax": "16258", "fmin": "14791", "accession": "NC_022598.1", "strand": "+", "sequence": "ATGGAACAATATACAATTAAATTTAACCAAATCAATCATAAATTGACAGATTTACGATCACTTAACATCGATCATCTTTATGCTTACCAATTTGAAAAAATAGCACTTATTGGGGGTAATGGTACTGGCAAAACCACATTACTAAATATGATTGCTCAAAAAACAAAACCAGAATCTGGAACAGTTGAAACGAATGGCGAAATTCAATATTTTGAACAGCTTAACATGGATGTGGAAAATGATTTTAACACGTTAGACGGTAGTTTAATGAGTGAACTCCATATACCTATGCATACAACCGACAGTATGAGTGGTGGTGAAAAAGCAAAATATAAATTAGCTAATGTCATATCAAATTATAGTCCGATATTACTTTTAGATGAACCTACAAATCACTTGGATAAAATTGGTAAAGATTATCTGAATAATATTTTAAAATATTACTATGGTACTTTAATTATAGTAAGTCACGATAGAGCACTTATAGACCAAATTGCTGACACAATTTGGGATATACAAGAAGATGGCACAATAAGAGTGTTTAAAGGTAATTACACACAGTATCAAAATCAATATGAACAAGAACAGTTAGAACAACAACGTAAATATGAACAGTATATAAGTGAAAAACAAAGATTGTCCCAAGCCAGTAAAGCTAAACGAAATCAAGCGCAACAAATGGCACAAGCATCATCAAAACAAAAAAATAAAAGTATAGCACCAGATCGTTTAAGTGCATCAAAACAAAAAGGCACGGTTGAGAAGGCTGCTCAAAAACAAGCTAAGCATATTGAAAAAAGAATGGAACATTTGGAAGAAGTTGAAAAACCACAAAGTTATCATGAATTCAATTTTCCACAAAATAAAATTTATGATATCCATAATAATTATCCAATCATTGCACAAAATCTAACATTGGTTAAAGGAAGTCAAAAACTGCTAACACAAGTACGATTCCAAATACCATATGGCAAAAATATAGCGCTCGTAGGTGCAAATGGTGTAGGTAAGACAACTTTACTTGAAGCTATTTACCACCAAATAGAGGGAATTGATTGTTCTCCTAAAGTGCAAATGGCATACTATCGTCAACTTGCTTATGAAGACATGCGTGACGTTTCATTATTGCAATATTTAATGGATGAAACGGATTCATCAGAATCATTCAGTAGAGCTATTTTAAATAACTTGGGTTTAAATGAAGCACTTGAGCGTTCTTGTAATGTTTTGAGTGGTGGGGAAAGAACGAAATTATCGTTAGCAGTATTATTTTCAACGAAAGCGAATATGTTAATTTTGGATGAACCAACTAATTTTTTAGATATTAAAACATTAGAAGCATTAGAAATGTTTATGAATAAATATCCTGGAATCATTTTGTTTACATCACATGATACAAGGTTTGTTAAACATGTATCAGATAAAAAATGGGAATTAACAGGACAATCTATTCATGATATAACTTAA"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Staphylococcus aureus", "NCBI_taxonomy_id": "1280", "NCBI_taxonomy_cvterm_id": "35508"}, "protein_sequence": {"accession": "YP_008709794.1", "sequence": "MEQYTIKFNQINHKLTDLRSLNIDHLYAYQFEKIALIGGNGTGKTTLLNMIAQKTKPESGTVETNGEIQYFEQLNMDVENDFNTLDGSLMSELHIPMHTTDSMSGGEKAKYKLANVISNYSPILLLDEPTNHLDKIGKDYLNNILKYYYGTLIIVSHDRALIDQIADTIWDIQEDGTIRVFKGNYTQYQNQYEQEQLEQQRKYEQYISEKQRLSQASKAKRNQAQQMAQASSKQKNKSIAPDRLSASKQKGTVEKAAQKQAKHIEKRMEHLEEVEKPQSYHEFNFPQNKIYDIHNNYPIIAQNLTLVKGSQKLLTQVRFQIPYGKNIALVGANGVGKTTLLEAIYHQIEGIDCSPKVQMAYYRQLAYEDMRDVSLLQYLMDETDSSESFSRAILNNLGLNEALERSCNVLSGGERTKLSLAVLFSTKANMLILDEPTNFLDIKTLEALEMFMNKYPGIILFTSHDTRFVKHVSDKKWELTGQSIHDIT"}}}}}, "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "400"}}}}}}, "943": {"$update": {"ARO_description": "vanUG is a vanG variant found in the vanG gene cluster.", "ARO_id": "41417", "ARO_accession": "3004253", "model_name": "vanUG", "ARO_name": "vanUG"}}, "392": {"$update": {"ARO_name": "TUS-1"}}, "1480": {"$update": {"ARO_name": "EXO-1"}}, "395": {"$update": {"model_name": "blaF", "ARO_name": "blaF"}}, "2803": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "500"}}}}}}, "1928": {"$update": {"ARO_description": "OXA-50 is a beta-lactamase found in Pseudomonas aeruginosa. It confers decreased susceptibility to ampicillin and ticarcillin and, interestingly, to moxalactam and meropenem in P. aeruginosa but not in E. coli. Also confers resistance to piperacillin-tazobactam and cephalotin."}}, "1223": {"$update": {"ARO_name": "vph"}}, "138": {"$update": {"ARO_description": "cmlR is a plasmid or chromosome-encoded chloramphenicol resistance determinant (putative transmembrane protein) that is found in Escherichia coli and Streptomyces lividans", "ARO_category": {"$insert": {"36298": {"category_aro_name": "efflux pump complex or subunit conferring antibiotic resistance", "category_aro_cvterm_id": "36298", "category_aro_accession": "3000159", "category_aro_description": "Efflux proteins that pump antibiotic out of a cell to confer resistance."}}}, "ARO_name": "Streptomyces lividans cmlR"}}, "1879": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "450"}}}}}}, "2785": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "700"}}}}}}, "237": {"$update": {"ARO_description": "This BlaB specific to Chryseobacterium meningosepticum mediates resistance against many beta-lactam antibiotics, notably penams and carbapenems.", "ARO_name": "Chryseobacterium meningosepticum BlaB"}}, "603": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "700"}}}}}}, "1812": {"$update": {"ARO_name": "KHM-1"}}, "49": {"$update": {"ARO_description": "tsnR is a 23S ribosomal RNA methyltransferase that methylates adenosine-1067 to confer resistance to thiostrepton", "model_sequences": {"$update": {"sequence": {"4186": {"dna_sequence": {"fmax": "1158", "fmin": "345", "accession": "L39157.1", "strand": "+", "sequence": "GTGGCCAATCTTGACGTTATTGTCGACCGTTCCGACCCCGCGGTGCAGCGCATCGTCGATGTGACCAAGCATTCCCGGTCCGTCGTGCGAACGGTGCTGATCGAGGACATCGAGCCCCTGACGCAGAGCATCCGCGCCGGGGTCGAGTTCACCGAGGTCTACGGTCTCGACACCGTGCCGTTCCCGGGTGATCTGCTCGCCGCCTGCGAAAAGCGCGGAATTCGGGTGCGGCTGCTCTCCGCCGCGGTCGCGAATCAGGTTTTCAAGACCGAGAAGAAGCCCAAGGTCTTCGGTATCGCGAAGGTTCCGCCGGCCGGCCGTTTCGCCGACCTGGAGAGCCTTTCCGGCGATGTCGTCCTGCTCGACGGCGTGAAGATCGTCGGCAACATCGGCGCCATCGTGCGGACGCGTTCGGCGCTCGGCGCCGCCGGCATCGTCCTGGTCGACAGCGGCCTCGGCACCATCGCGGACCGCCGGCTCATCCGCGCCAGCCGCGGCTACGTGTTCTCCCTGCCGATCGTGCTCGCGACGCGCGACGAGGCGCTGGCCTTCTTCCGTGACGGCGGGATGCGGCCCGTGGTCTTCGAGGCGGACGGCAAGCTGTCCATCGGAGAGCTCGACGGCATCGACGAGCGGCTCGTGCTCGTGTTCGGCAGCGAGAAGACCGGCCCGTCGGGCGAGTTCGCCGGGGTCGCCACCGAGTCGGTGTCCATCCCGATGAACCCCGCCGCCGAGTCGCTCAACGTCTCGGTGTCGGCCGGCATCGCCCTGCACCGGCGGGCCCGCCGCAACCTCTCGCGCCCGCGCGGCTGA"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Streptomyces laurentii", "NCBI_taxonomy_id": "39478", "NCBI_taxonomy_cvterm_id": "41352"}, "protein_sequence": {"accession": "AAA99931.1", "sequence": "MANLDVIVDRSDPAVQRIVDVTKHSRSVVRTVLIEDIEPLTQSIRAGVEFTEVYGLDTVPFPGDLLAACEKRGIRVRLLSAAVANQVFKTEKKPKVFGIAKVPPAGRFADLESLSGDVVLLDGVKIVGNIGAIVRTRSALGAAGIVLVDSGLGTIADRRLIRASRGYVFSLPIVLATRDEALAFFRDGGMRPVVFEADGKLSIGELDGIDERLVLVFGSEKTGPSGEFAGVATESVSIPMNPAAESLNVSVSAGIALHRRARRNLSRPRG"}}}}}, "model_name": "tsnR", "ARO_name": "tsnR"}}, "1942": {"$update": {"ARO_name": "BJP-1"}}, "874": {"$update": {"ARO_name": "AAC(1)-I"}}, "1718": {"$update": {"ARO_name": "DIM-1"}}, "1104": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "1900"}}}}}}, "2138": {"$update": {"ARO_name": "NmcA"}}, "871": {"$update": {"ARO_name": "CGB-1"}}, "322": {"$update": {"ARO_name": "FEZ-1"}}, "2400": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "2000"}}}}}}, "1237": {"$update": {"ARO_category": {"$insert": {"36520": {"category_aro_name": "antibiotic target replacement protein", "category_aro_cvterm_id": "36520", "category_aro_accession": "3000381", "category_aro_description": "Alternate proteins that have the same functions as other antibiotic target proteins, but are structurally different and thus resistant to antibiotics. These can replace the activity of other antibiotic-sensitive proteins in the presence of antibiotics."}}}}}, "1395": {"$update": {"ARO_description": "Mutant forms of the porin Por result in reduced permeability to antibiotics, particularly tetracyclines and beta-lactams.", "ARO_name": "Neisseria gonorrhoeae mutant porin PIB (por) with reduced permeability to antibiotics"}}, "1677": {"$update": {"ARO_name": "cepA"}}, "1393": {"$update": {"ARO_name": "THIN-B"}}, "815": {"$update": {"ARO_description": "GOB-1 confers resistance to cephalosporins in Elizabethkingia (Chryseobacterium) meningoseptica.", "ARO_name": "GOB-1"}}, "1294": {"$update": {"ARO_description": "Sed-1 is a chromosomal-encoded class A beta-lactamase identified in Citrobacter sedlakii.", "ARO_name": "Sed-1"}}, "753": {"$update": {"ARO_name": "SMB-1"}}, "707": {"$update": {"ARO_description": "AIM-1 is an Ambler class B beta-lactamase that hydrolyzes most beta-lactams except aztreonam and ceftazidime. It was isolated from Pseudomonas aeruginosa and was the first subclass B3 mobile-elements encoded beta-lactamase discovered."}}, "1338": {"$update": {"ARO_description": "Bla1 is a chromosomal-encoded beta-lactamase, found in Bacillus anthracis, which hydrolyzes penicillins.", "ARO_name": "Bla1"}}, "2281": {"$update": {"ARO_category": {"$delete": ["37131"]}}}, "2282": {"$update": {"ARO_category": {"$delete": ["37131"]}}}, "2283": {"$update": {"ARO_category": {"$delete": ["37131"]}}}, "2819": {"$update": {"ARO_category": {"35950": {"category_aro_name": "antibiotic resistant gene variant or mutant", "category_aro_cvterm_id": "35950", "category_aro_accession": "0000031", "category_aro_description": "Resistance to antibiotics is often conferred by single nucleotide polymorphisms (SNPs) and other mutations in target genes."}, "40403": {"category_aro_name": "determinant of oxazolidinone resistance", "category_aro_cvterm_id": "40403", "category_aro_accession": "3003747", "category_aro_description": "Enzymes, other proteins or other gene products shown clinically to confer resistance to oxazolidinone (ie., linezolid) antibiotics."}}}}, "90": {"$update": {"ARO_category": {"$insert": {"36520": {"category_aro_name": "antibiotic target replacement protein", "category_aro_cvterm_id": "36520", "category_aro_accession": "3000381", "category_aro_description": "Alternate proteins that have the same functions as other antibiotic target proteins, but are structurally different and thus resistant to antibiotics. These can replace the activity of other antibiotic-sensitive proteins in the presence of antibiotics."}}}}}, "332": {"$update": {"ARO_name": "R39"}}, "222": {"$update": {"ARO_name": "JOHN-1"}}, "2831": {"$update": {"ARO_name": "rpoB2"}}, "51": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "500"}}}}}}, "_timestamp": "2017-10-10T19:05:18+00:00", "1427": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "1900"}}}}}}, "1282": {"$update": {"ARO_name": "SIM-1"}}, "1558": {"$update": {"ARO_category": {"$delete": ["37131"]}}}, "2279": {"$update": {"ARO_category": {"$delete": ["37131"]}}}, "2234": {"$update": {"ARO_description": "MSI-OXA is an OXA-85-like class D beta lactamase isolated from Massilia oculi."}}, "1460": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "250"}}}}}}, "_version": "1.2.1", "534": {"$update": {"ARO_description": "vanVB is a vanV variant found in the vanB gene cluster. It is found in some but not all vanB operons in E. faecalis, suggesting the existence of varied gene compositions in vanB operons.", "ARO_id": "41418", "ARO_accession": "3004254", "model_name": "vanVB", "ARO_name": "vanVB"}}, "2752": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "450"}}}}}}, "2753": {"$update": {"ARO_name": "HMB-1"}}, "1687": {"$update": {"ARO_name": "cphA3"}}, "299": {"$update": {"ARO_description": "CEPS is a typical class C cephalosporinase found in Aeromonas sobria, first isolated from strain 163a.", "ARO_name": "CepS"}}, "1721": {"$update": {"ARO_category": {"$delete": ["36547"]}}}, "2375": {"$update": {"ARO_name": "Rm3"}}, "538": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "500"}}}}}}, "1381": {"$update": {"ARO_description": "This CcrA beta-lactamases is found in Bacteroides fragilis.", "ARO_name": "CcrA"}}, "1109": {"$update": {"ARO_name": "CAU-1"}}}, "$delete": ["2830"], "$insert": {"2840": {"model_id": "2840", "ARO_accession": "3004239", "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": "NPS-1 is a plasmid-encoded class D beta-lactamases identified from two Pseudomonas aeruginosa isolates in 1986.", "model_sequences": {"sequence": {"4191": {"dna_sequence": {"fmax": "828", "fmin": "45", "accession": "AY027589", "strand": "+", "sequence": "ATGCTGAAGAGCACCCTTCTGGCCTTTGGTCTCTTTATCGCACTCTCAGCGCGTGCAGAGAACCAGGCAATCGCCCAGCTTTTCCAGAGGGCAGGAGTCGATGGGACCATCGTCATCGAGTCTCTAACCACCAGACAGCGCTTGGTTCACAACGATCCTCGTGCGCAACAACGATACCCGGCAGCTTCCACGTTCAAGGTACTCAATACCTTGATTGCTCTCGAAGAGGGCGCCATTTCAGGTGAGAACCAGATCTTTCACTGGAACGGTACCCAGTATTCGATTGCGAATTGGAACCAGGACCAGACTCTAGACAGTGCGTTTAAAGTGAGTTGTGTCTGGTGCTACCAGCAGATTGCCCTTCGAGTGGGGGCACTCAAGTACCCAGCCTATATTCAACAGACAAACTATGGTCATTTACTGGAACCCTTCAATGGAACGGAGTTTTGGCTGGATGGCTCTTTGACGATCAGCGCGGAAGAACAGGTTGCCTTTCTCCGACGGGTTGTTGAGCGAAAACTACCGTTCAAAGCGAGCAGCTATGATTCCCTGAAGAAAGTCATGTTCGCCGATGAGAATGCCCAGTATCGCCTTTATGCAAAAACGGGTTGGGCGACCCGCATCACTCCCTCGGTGGGTTGGTATGTTGGCTATGTTGAAGCACAGGACGATGTTTGGCTGTTTGCCCTGAATCTTGCTACCCGCGACGCAAATGACCTGCCCCTACGAACGCAGATAGCCAAAGACGCGCTGAAGGCGATAGGTGCGTTTCATGCGAAGTAA"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}, "protein_sequence": {"accession": "AAK14791", "sequence": "MLKSTLLAFGLFIALSARAENQAIAQLFQRAGVDGTIVIESLTTRQRLVHNDPRAQQRYPAASTFKVLNTLIALEEGAISGENQIFHWNGTQYSIANWNQDQTLDSAFKVSCVWCYQQIALRVGALKYPAYIQQTNYGHLLEPFNGTEFWLDGSLTISAEEQVAFLRRVVERKLPFKASSYDSLKKVMFADENAQYRLYAKTGWATRITPSVGWYVGYVEAQDDVWLFALNLATRDANDLPLRTQIAKDALKAIGAFHAK"}}}}, "ARO_category": {"36696": {"category_aro_name": "antibiotic inactivation enzyme", "category_aro_cvterm_id": "36696", "category_aro_accession": "3000557", "category_aro_description": "Enzyme that catalyzes the inactivation of an antibiotic resulting in resistance.  Inactivation includes chemical modification, destruction, etc."}, "36268": {"category_aro_name": "determinant of beta-lactam resistance", "category_aro_cvterm_id": "36268", "category_aro_accession": "3000129", "category_aro_description": "Enzymes, other proteins or other gene products shown clinically to confer resistance to beta-lactam antibiotics."}}, "ARO_name": "NPS-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": "41403", "model_name": "NPS-1", "model_type_id": "40292"}, "2839": {"model_id": "2839", "ARO_accession": "3004213", "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": "GOB-18 is a member of subclass B3 GOB family of beta-lactamases isolated from Elizabethkingia meningoseptica. GOB-18 is unlike other subclass B3 beta-lactamases as it is fully active against a broad range of beta-lactam substrates using a single Zn(II) ion in its active site.", "model_sequences": {"sequence": {"4190": {"dna_sequence": {"fmax": "290", "fmin": "0", "accession": "DQ004496.1", "strand": "+", "sequence": "ATGAGAAATTTTGCTACACTGTTTTTCATGTTCATTTGCTTGGGCTTGAGTGCTCAGGTAGTAAAAGAACCTGAAAATATGCCCAAAGAATGGAATCAGGCTTATGAACCATTCAGAATTGCAGGTAATTTATATTACGTAGGAACCTATGATTTGGCTTCTTACCTTATTGTGACAGACAAAGGCAATATTCTCATTAATACAGGAACGGCAGAATCGTTTCCAATAATAAAAGCAAATATCCAAAAGCTCGGGTTTAATTATAAAGACATTAAGATCTTGCTGCTTAC"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Elizabethkingia meningoseptica", "NCBI_taxonomy_id": "238", "NCBI_taxonomy_cvterm_id": "36960"}, "protein_sequence": {"accession": "AAY53478.1", "sequence": "MRNFATLFFMFICLGLSAQVVKEPENMPKEWNQAYEPFRIAGNLYYVGTYDLASYLIVTDKGNILINTGTAESFPIIKANIQKLGFNYKDIKILLLTQAHYDHTGALQDFKTETAAKFYVDKADVDVLRTGGKSDYEMGKYGVTFKPVTPDKTLKDQDKIKLGNITLTLLHHPGHTKGSCSFIFETKDEKRKYRVLIANMPSVIVDKKFSEVTAYPNIQSDYAYTFGVMKKLDFDIWVASHASQFDLHEKRKEGDPYNPQLFMDKQSYFQNLNDLEKSYLNKIKKDSQDK"}}}}, "ARO_category": {"36696": {"category_aro_name": "antibiotic inactivation enzyme", "category_aro_cvterm_id": "36696", "category_aro_accession": "3000557", "category_aro_description": "Enzyme that catalyzes the inactivation of an antibiotic resulting in resistance.  Inactivation includes chemical modification, destruction, etc."}, "36268": {"category_aro_name": "determinant of beta-lactam resistance", "category_aro_cvterm_id": "36268", "category_aro_accession": "3000129", "category_aro_description": "Enzymes, other proteins or other gene products shown clinically to confer resistance to beta-lactam antibiotics."}}, "ARO_name": "GOB-18", "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": "41377", "model_name": "GOB-18", "model_type_id": "40292"}, "2838": {"model_id": "2838", "ARO_accession": "3004194", "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 plasmid-borne novel MCR-1 functional variant detected in a Klebsiella pneumoniae isolate collected from a rectal swab in Italy. MCR-1.2 differs from MCR-1 by a single amino acid substitution from Glutamine to Leucine at position 3 in the N-terminal region. Described by DiPilato et al. 2016", "model_sequences": {"sequence": {"4189": {"dna_sequence": {"fmax": "4762", "fmin": "3136", "accession": "KX236309.1", "strand": "-", "sequence": "TCAGCGGATGAATGCGGTGCGGTCTTTGACTTTGTCCGCGGTGACATCAAACAGCTTTAATAATGTCGGCGTGATCGCGTCATGGGTCAGGACGGTATCGGTTGCCATTGGCGTGATGCCAGTTTGCTTATCCGTCCAGAAAAATGCAGGCACACTGCGCTGTTCTTTTGGTGCAAAGGCATTTGGCATACCATGTAGATAGACACCGTTCTCACCCAGACTTTCGCCATGATCGCTGACATACAGCATTGAGACATCATAGGCATTGCTGTGCGTCTGCAGCCACTGGATACTTTGAGCGATGAAATCATCGGTGGCAAGCAAGGCATTGTCATAAGCATTGATCAAGGACTGATGTTCGCACTTGGCAAGCTCATTACCTTCACACACTGGCGTGAATTTGGCAAACTTTTCATCATATCGCTTAAAATACGCAGGCCCGTGATTGCCCATTTGGTGCAGCATGATCAGCATATCTTTGCCGTTATTGGCAGCGACAAAGTCATCTAAGCCAACGAGCATACCGACATCGCGGCATTCGTTATAAGGATTGGTGTTGCAGATGGCGTTGTTGGTCGCGGATTTATAATCGGCAAATTGCGCTTTTGGCAGCTTATCCATCACGCCTTTTGAGTCCGAATTATTATCACGCCACAAGATACTTACGCCCAAGCGATCCAGCGTATCCAGCACATTTTCTTGGTATTTGGCGGTATCGACATCATACTCATCCGCGCCCAGATAGCTGAACATACACGGCACAGAATACGCCGTCGATGTGCCGCACGATGTGACATTGCTAAAATTGGTCACGCCATCGATCTTGGCAAGCTGTGGGAAAGTATCGCGCTCATAGCCATTGAAGCTGACATGATCGGCGCGTGCCGTCTCACCGACGACGAACACCACTAGGCGTGGCTTACGCATATCAGGCTTGGTTGCTTGTACCGCGTCTTTGGCGTGATAAATGGTATCTTTTGGCGCACTGGCTTTTTTATACTCAATACTGGCAAGCTTACCCACCGAGTAGATTGGCATGATCGGATTGACATAGCTACGCAGCGGCTTATGCACGCGAAAGAAACTGGCATAATGACTGCTGAACGCCACCACAGGCAGTAAAATCAGCGCAAGACTTGCCACGATCAAGCCCAATCGGCGCATCAAACCCTTGCCCCAAGTCGGATAATCCACCTTAACAAAAGCCACAAGCAAACTTGGTAGCACACCCAAACCAATGATACGCATGATAAACGCTGCGTTTAATAGATCCTTGGTCTCGGCTTGGTCGGTCTGTAGGGCATTTTGGAGCATGGTCGTATCATAGACCGTGCCATAAGTGTCAGTAAAATAACTGGTCACCGCGCCCATGATTAATAGCAAAATCAACACAGGCTTTAGCACATAGCGATACGATGATAACAGCGTGGTGATCAGTAGCATCGCGCCAAAGAGCACGACAGCGATCGTCAGCACAAAGCCGAGATTGTCCGCGATGGGATAGGTTTGGCTGATTTTATCAAAAAAGGTAAGATTGGCGGTCGCGGTCAAGAAAACGGCAACACTCGCCACAAGAACAAACGGACTGACCGAGCGTCGGTACCACACAGAAGTATGCAGCATCAT"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}, "protein_sequence": {"accession": "ANR95875.1", "sequence": "MMLHTSVWYRRSVSPFVLVASVAVFLTATANLTFFDKISQTYPIADNLGFVLTIAVVLFGAMLLITTLLSSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAETKDLLNAAFIMRIIGLGVLPSLLVAFVKVDYPTWGKGLMRRLGLIVASLALILLPVVAFSSHYASFFRVHKPLRSYVNPIMPIYSVGKLASIEYKKASAPKDTIYHAKDAVQATKPDMRKPRLVVFVVGETARADHVSFNGYERDTFPQLAKIDGVTNFSNVTSCGTSTAYSVPCMFSYLGADEYDVDTAKYQENVLDTLDRLGVSILWRDNNSDSKGVMDKLPKAQFADYKSATNNAICNTNPYNECRDVGMLVGLDDFVAANNGKDMLIMLHQMGNHGPAYFKRYDEKFAKFTPVCEGNELAKCEHQSLINAYDNALLATDDFIAQSIQWLQTHSNAYDVSMLYVSDHGESLGENGVYLHGMPNAFAPKEQRSVPAFFWTDKQTGITPMATDTVLTHDAITPTLLKLFDVTADKVKDRTAFIR"}}}}, "ARO_category": {"39418": {"category_aro_name": "determinant of polymyxin resistance", "category_aro_cvterm_id": "39418", "category_aro_accession": "3002984", "category_aro_description": "Enzymes, other proteins or other gene products shown clinically to confer resistance to polymyxin antibiotics, i.e. colistin."}, "40190": {"category_aro_name": "gene altering cell wall charge", "category_aro_cvterm_id": "40190", "category_aro_accession": "3003580", "category_aro_description": "Genes involved in alteration of the cell wall overall charge, leading to antimicrobial resistance due to reduced binding"}}, "ARO_name": "MCR-1.2", "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": "41358", "model_name": "MCR-1.2", "model_type_id": "40292"}, "2837": {"model_id": "2837", "ARO_accession": "3004191", "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": "Aminoglycoside 2''-phosphotransferase identified from the gram-negative pathogen Campylobacter jejuni. APH(2'')-If was shown to confer resistance to 4,6-disubstituted antibiotics kanamycin, tobramycin, dibekacin, gentamicin and sisomicin through antibiotic phosphorylation. Described by Toth et al. 2013.", "model_sequences": {"sequence": {"4188": {"dna_sequence": {"fmax": "10589", "fmin": "9695", "accession": "AY701528.1", "strand": "+", "sequence": "ATGGATATAAAAAAGATAATAGAAGAAAAATGCAATATAGTTGTTGATAGTATAAAGTTGATTGGTGAGGGTTATGACAGCAAAGCATACATTGTAAATAATGAATATGTTTTCAAAATCAAATTTAGTGCTAATAAGAAAAAAGGGTATGAAAAAGAAAAAGCAATATATGATTTTCTAAACAAAAAATTAAATACAAATATTAAAATACCAAATATAGAATATTCATATATAAGTGAAGAATTATCTATTTTAGGATATAAAGAAATTAAAGGAACTTTTTTAACACCAGAAATATATTTTGCCTTATCAAAAGAAAAGCAAGAATTATTAAAGCAAGATATTGCTATGTTTTTAAGACAAATGCACGATTTAGATTATAGTGAAATAAGTTCATATACGATAGACAATAAACAAAATGTTTTAGAAGAATATCAATTACTTAAAGAAACAATATATGATAGTCTTACTGATATTGAAAAACAATATGTAGAAGAATTTATGCAAAGATTAAATAGTACAACTATATTTGATGGTAAAAAATGCTTATGCCATAATGATTTTAGTTGTAATCATTTATTACTTGATGATGAAAATAGATTATGTGGTGTAATAGATTTTGGAGATTCTGGAATTATAGATGAATACTGTGATTTCATATATTTGCTAGAAGATAGTGAAGAAGAAATTGGCGTGTCTTTTGGAGAAGATATATTAAGATTATACGGAAATATTGATATTTCAAAAGCAAAGGAATATCAAGATGTTGTAGAACAATATTATCCAATAGAAACTATTGTATATGGTATTAAAAATAATAGACCTGATTTTATAGAAAAAGGTAGAAAAGAGATTTATATAAGAACTCGCAAAGATGAAAAATTAAGGAAGTGA"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Campylobacter jejuni", "NCBI_taxonomy_id": "197", "NCBI_taxonomy_cvterm_id": "36772"}, "protein_sequence": {"accession": "AAW34150.1", "sequence": "MDIKKIIEEKCNIVVDSIKLIGEGYDSKAYIVNNEYVFKIKFSANKKKGYEKEKAIYDFLNKKLNTNIKIPNIEYSYISEELSILGYKEIKGTFLTPEIYFALSKEKQELLKQDIAMFLRQMHDLDYSEISSYTIDNKQNVLEEYQLLKETIYDSLTDIEKQYVEEFMQRLNSTTIFDGKKCLCHNDFSCNHLLLDDENRLCGVIDFGDSGIIDEYCDFIYLLEDSEEEIGVSFGEDILRLYGNIDISKAKEYQDVVEQYYPIETIVYGIKNNRPDFIEKGRKEIYIRTRKDEKLRK"}}}}, "ARO_category": {"36696": {"category_aro_name": "antibiotic inactivation enzyme", "category_aro_cvterm_id": "36696", "category_aro_accession": "3000557", "category_aro_description": "Enzyme that catalyzes the inactivation of an antibiotic resulting in resistance.  Inactivation includes chemical modification, destruction, etc."}, "36243": {"category_aro_name": "determinant of aminoglycoside resistance", "category_aro_cvterm_id": "36243", "category_aro_accession": "3000104", "category_aro_description": "Enzymes, other proteins or other gene products shown clinically to confer resistance to aminoglycoside antibiotics."}}, "ARO_name": "APH(2'')-If", "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": "41355", "model_name": "APH(2'')-If", "model_type_id": "40292"}, "2836": {"model_id": "2836", "ARO_accession": "3004189", "model_param": {"blastp_bit_score": {"param_value": "475", "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": "Bla2 is a chromosomal-encoded beta-lactamase, found in Bacillus anthracis, which has penicillin, cephalosporin, and carbapenem-hydrolizing abilities.", "model_sequences": {"sequence": {"4187": {"dna_sequence": {"fmax": "1271", "fmin": "500", "accession": "AY453162", "strand": "+", "sequence": "ATGAAAAATACATTATTAAAATTAGGGGTATGTGTTAGTTTACTAGGAATAACTCCATTTGTTAGTACAATTTCTTCTGTACAAGCAGAACGAAAGGTAGAGCATAAAGTAATAAAAAATGAGACAGGAACTATTTCAATTTCTCAGTTAAACAAAAATGTTTGGGTTCATACGGAGTTAGGTTGTTTTAACGGAGAAGCAGTTCCTTCGAACGGTTTAATCCTTAATACTTCTAAAGGATTAGTACTTGTCGATTCTTCTTGGGATGATAAGTTAACGAAGGAATTAATAGAGATGGCAGAAAAGAAATTTAAGAAGAGTGTAACGGATGTTATTATTACACATGCACACGCTGATCGGATTGGTGGAATAAAAACGTTGAAAGAAAGAGGCATTAAAGCGCATAGTACAACGTTAACTGCGGAACTAGCAAAGAAAAATGGATATGAAGAACCACTTGGAGACTTACAAGCAATTACGAAATTGAAGTTTGGAAATATGAAAGTAGAAACGTTTTATCCAGGGAAAGGACATACAGAAGATAATATCGTCGTATGGTTACCACAATACAACATGTTAGTTGGAGGCTGTTTAGTGAAGTCTGCGTCCGCGAAAGATTTAGGAAATATTACTGATGCTTATGTAAATGAATGGTCTACATCGATTGAGAATGTGCTGAAGCGATATGAAAATATAAATTTTGTAGTACCTGGTCATGGAGAAGTAGGGGACAAAGGATTACTTTTACATACATTGGATTTGTTAAAATAA"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus anthracis", "NCBI_taxonomy_id": "1392", "NCBI_taxonomy_cvterm_id": "36786"}, "protein_sequence": {"accession": "AAR20596.1", "sequence": "MKNTLLKLGVCVSLLGITPFVSTISSVQAERKVEHKVIKNETGTISISQLNKNVWVHTELGCFNGEAVPSNGLILNTSKGLVLVDSSWDDKLTKELIEMAEKKFKKSVTDVIITHAHADRIGGIKTLKERGIKAHSTTLTAELAKKNGYEEPLGDLQAITKLKFGNMKVETFYPGKGHTEDNIVVWLPQYNMLVGGCLVKSASAKDLGNITDAYVNEWSTSIENVLKRYENINFVVPGHGEVGDKGLLLHTLDLLK"}}}}, "ARO_category": {"36696": {"category_aro_name": "antibiotic inactivation enzyme", "category_aro_cvterm_id": "36696", "category_aro_accession": "3000557", "category_aro_description": "Enzyme that catalyzes the inactivation of an antibiotic resulting in resistance.  Inactivation includes chemical modification, destruction, etc."}, "36268": {"category_aro_name": "determinant of beta-lactam resistance", "category_aro_cvterm_id": "36268", "category_aro_accession": "3000129", "category_aro_description": "Enzymes, other proteins or other gene products shown clinically to confer resistance to beta-lactam antibiotics."}}, "ARO_name": "Bla2", "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": "41353", "model_name": "Bla2", "model_type_id": "40292"}, "2835": {"model_id": "2835", "ARO_accession": "3000769", "ARO_name": "PatA-PatB", "ARO_description": "PatA-PatB is an efflux protein complex that is associated with fluoroquinolone resistance in Streptococcus pneumoniae. Experiments indicate that PatA and PatB form a heterodimeric transporter.", "ARO_category": {"36298": {"category_aro_name": "efflux pump complex or subunit conferring antibiotic resistance", "category_aro_cvterm_id": "36298", "category_aro_accession": "3000159", "category_aro_description": "Efflux proteins that pump antibiotic out of a cell to confer resistance."}}, "model_param": {"41141": {"param_value": {"8203": "2081,2112"}, "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."}}, "model_type": "efflux pump system meta-model", "model_description": "A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)", "ARO_id": "37149", "model_name": "PatA-PatB", "model_type_id": "41112"}, "2834": {"model_id": "2834", "ARO_accession": "3004135", "model_param": {"41339": {"param_value": {"8201": "ntC-89T"}, "param_type_id": "41339", "param_type": "mutation in regulatory element", "param_description": "An AMR detection model parameter to describe mutations in regulatory elements upstream of a coding DNA region shown to confer resistance to an antibiotic drug or drug class. Regulatory element mutations in CARD use the following notation: nt[wild-type][-][position][mutation]."}, "blastp_bit_score": {"param_value": "800", "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."}, "snp": {"param_type": "single resistance variant", "param_value": {"8200": "A47T"}, "clinical": {"8200": "A47T"}, "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 M. tuberculosis iniB shown to confer resistance to ethambutol.", "model_sequences": {"sequence": {"4184": {"dna_sequence": {"fmax": "410801", "fmin": "409361", "accession": "NC_000962.3", "strand": "+", "sequence": "ATGACCTCGCTTATCGATTACATCCTGAGCCTGTTCCGCAGCGAAGACGCCGCCCGGTCGTTCGTTGCCGCTCCGGGACGGGCCATGACCAGTGCCGGGCTGATCGATATCGCGCCGCACCAAATCTCATCGGTGGCGGCCAATGTGGTGCCGGGTCTGAATCTGGGTGCCGGCGACCCCATGAGCGGATTGCGGCAGGCCGTCGCCGCTCGGCATGGCTTTGCGCAGGACGTCGCCAATGTCGGCTTCGCCGGTGACGCGGGCGCGGGGGTGGCAAGCGTCATCACGACCGATGTCGGTGCGGGCCTGGCTAGCGGACTGGGTGCTGGGTTCCTGGGTCAGGGTGGCCTGGCTCTCGCCGCGTCAAGCGGTGGTTTCGGCGGTCAGGTCGGCTTGGCTGCCCAGGTCGGTCTGGGTTTTACTGCCGTGATTGAGGCCGAGGTCGGCGCTCAGGTTGGTGCTGGGTTAGGTATTGGGACGGGTCTGGGTGCTCAGGCCGGTATGGGCTTTGGCGGCGGGGTTGGCCTGGGTCTGGGTGGTCAGGCCGGCGGTGTGATCGGTGGGAGCGCGGCCGGGGCTATCGGTGCCGGCGTCGGCGGTCGCCTAGGCGGCAATGGCCAGATCGGAGTTGCCGGCCAGGGTGCCGTTGGCGCTGGTGTCGGCGCTGGTGTCGGCGGCCAGGCGGGCATCGCTAGCCAGATCGGTGTCTCAGCCGGTGGTGGGCTCGGCGGCGTCGGCAATGTCAGCGGCCTGACCGGGGTCAGCAGCAACGCAGTGTTGGCTTCCAACGCAAGCGGCCAGGCGGGGTTGATCGCCAGTGAAGGCGCTGCCTTGAACGGCGCTGCTATGCCTCATCTGTCGGGCCCGTTAGCCGGTGTCGGTGTGGGTGGTCAGGCCGGCGCCGCTGGCGGCGCCGGGTTGGGCTTCGGAGCGGTCGGGCACCCGACTCCTCAGCCGGCGGCCCTGGGCGCGGCTGGCGTGGTGGCCAAGACCGAGGCGGCTGCTGGAGTGGTTGGCGGGGTCGGCGGGGCAACCGCGGCCGGGGTCGGCGGGGCACACGGCGACATCCTGGGCCACGAGGGAGCCGCACTGGGCAGTGTCGACACGGTCAACGCCGGTGTCACGCCCGTCGAGCATGGCTTGGTCCTGCCCAGTGGCCCCCTGATCCACGGCGGTACCGGCGGCTATGGCGGCATGAACCCGCCAGTGACCGATGCGCCGGCACCGCAAGTTCCGGCGCGGGCCCAGCCGATGACCACGGCGGCCGAGCACACGCCGGCGGTTACCCAACCGCAGCACACGCCGGTCGAGCCGCCGGTCCACGATAAGCCGCCGAGCCATTCGGTGTTTGACGTCGGTCACGAGCCGCCGGTGACGCACACGCCGCCGGCGCCCATCGAACTGCCGTCGTACGGCCTTTTCGGACTACCCGGGTTCTGA"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Mycobacterium tuberculosis H37Rv", "NCBI_taxonomy_id": "83332", "NCBI_taxonomy_cvterm_id": "39507"}, "protein_sequence": {"accession": "NP_214855.1", "sequence": "MTSLIDYILSLFRSEDAARSFVAAPGRAMTSAGLIDIAPHQISSVAANVVPGLNLGAGDPMSGLRQAVAARHGFAQDVANVGFAGDAGAGVASVITTDVGAGLASGLGAGFLGQGGLALAASSGGFGGQVGLAAQVGLGFTAVIEAEVGAQVGAGLGIGTGLGAQAGMGFGGGVGLGLGGQAGGVIGGSAAGAIGAGVGGRLGGNGQIGVAGQGAVGAGVGAGVGGQAGIASQIGVSAGGGLGGVGNVSGLTGVSSNAVLASNASGQAGLIASEGAALNGAAMPHLSGPLAGVGVGGQAGAAGGAGLGFGAVGHPTPQPAALGAAGVVAKTEAAAGVVGGVGGATAAGVGGAHGDILGHEGAALGSVDTVNAGVTPVEHGLVLPSGPLIHGGTGGYGGMNPPVTDAPAPQVPARAQPMTTAAEHTPAVTQPQHTPVEPPVHDKPPSHSVFDVGHEPPVTHTPPAPIELPSYGLFGLPGF"}}}}, "ARO_category": {"36298": {"category_aro_name": "efflux pump complex or subunit conferring antibiotic resistance", "category_aro_cvterm_id": "36298", "category_aro_accession": "3000159", "category_aro_description": "Efflux proteins that pump antibiotic out of a cell to confer resistance."}, "35950": {"category_aro_name": "antibiotic resistant gene variant or mutant", "category_aro_cvterm_id": "35950", "category_aro_accession": "0000031", "category_aro_description": "Resistance to antibiotics is often conferred by single nucleotide polymorphisms (SNPs) and other mutations in target genes."}, "40134": {"category_aro_name": "determinant of resistance to polyamine antibiotics", "category_aro_cvterm_id": "40134", "category_aro_accession": "3003532", "category_aro_description": "Enzymes, other proteins or other gene products shown clinically to confer resistance to polyamine antibiotics."}}, "ARO_name": "Mycobacterium tuberculosis iniB with mutation conferring resistance to ethambutol", "model_type": "protein variant model", "model_description": "The protein variant model is an AMR detection model. Protein variant models are similar to protein homolog models - they detect the presence of a protein sequence based on its similarity to a curated reference sequence, but secondarily search submitted query sequences for curated sets of mutations shown clinically to confer resistance relative to wild-type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations. Protein variant model matches to reference sequences are categorized on two criteria: \"strict\" and \"loose\". A strict match has a BLASTP bitscore above the curated BLASTP cutoff value and contains at least one detected mutation from amongst the mapped resistance variants; a loose match has a BLASTP bitscore below the curated BLASTP cutoff value but still contains at least one detected mutation from amongst the mapped resistance variants. Regardless of BLASTP bitscore, if a sequence does not contain one of the mapped resistance variants, it is not considered a match and not detected by the protein variant model.", "ARO_id": "41262", "model_name": "Mycobacterium tuberculosis iniB with mutation conferring resistance to ethambutol", "model_type_id": "40293"}}}