{"$update": {"1305": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "215": {"$update": {"ARO_category": {"$insert": {"35959": {"category_aro_name": "bacitracin", "category_aro_cvterm_id": "35959", "category_aro_accession": "0000041", "category_aro_class_name": "Antibiotic", "category_aro_description": "Bacitracin is a mixture of related cyclic polypeptides produced by organisms of the licheniformis group of Bacillus subtilis var Tracy. 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Bacitracin interferes with the dephosphorylation of the C55-isoprenyl pyrophosphate, a molecule which carries the building blocks of the peptidoglycan bacterial cell wall outside of the inner membrane."}}}}}, "811": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"5840": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Enterobacter kobei", "NCBI_taxonomy_id": "208224", "NCBI_taxonomy_cvterm_id": "39773"}}}}}}}}}}, "1670": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "1317": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "715": {"$update": {"ARO_category": {"$update": {"40951": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}, "40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "3401": {"$update": {"CARD_short_name": "tet(X3)", "model_name": "tet(X3)", "ARO_name": "tet(X3)"}}, "3402": {"$update": {"CARD_short_name": "tet(X4)", "model_name": "tet(X4)", "ARO_name": "tet(X4)"}}, "4565": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6940": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}}}}}}}}}}, "1952": {"$update": {"ARO_category": {"$update": {"40951": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}, "40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "1553": {"$update": {"CARD_short_name": "tet(S)", "ARO_name": "tet(S)", "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "300"}}}}, "model_name": "tet(S)"}}, "1825": {"$update": {"ARO_category": {"$update": {"40951": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}, "40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "1820": {"$update": {"ARO_category": {"$insert": {"35959": {"category_aro_name": "bacitracin", "category_aro_cvterm_id": "35959", "category_aro_accession": "0000041", "category_aro_class_name": "Antibiotic", "category_aro_description": "Bacitracin is a mixture of related cyclic polypeptides produced by organisms of the licheniformis group of Bacillus subtilis var Tracy. 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They are polypeptides with cationic detergent action on cell membranes."}}}}}, "2072": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "5686": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"8061": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Klebsiella pneumoniae subsp. pneumoniae", "NCBI_taxonomy_id": "72407", "NCBI_taxonomy_cvterm_id": "39097"}}}}}}}}}}, "440": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "3814": {"$update": {"ARO_description": "ROB-2 is an extended spectrum class A beta-lactamase from the blaROB AMR gene family It is described by Kadlec et al.", "CARD_short_name": "ROB-2", "model_name": "ROB-2", "ARO_name": "ROB-2"}}, "1233": {"$update": {"ARO_description": "Tet(32) is a tetracycline resistance gene similar to Tet(O), and binds to the ribosome to confer tetracycline resistance as a ribosomal protection protein.", "CARD_short_name": "tet(32)", "ARO_name": "tet(32)", "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "300"}}}}, "model_name": "tet(32)"}}, "1336": {"$update": {"ARO_category": {"$update": {"36716": {"$update": {"category_aro_name": "subclass B1 Bacillus cereus Bc beta-lactamase", "category_aro_description": "Subclass B1 Bacillus cereus Bc beta-lactamases are zinc metallo-beta-lactamases that hydrolyze a large number of penicillins and cephalosporins."}}}}}}, "3266": {"$update": {"ARO_category": {"$update": {"40951": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "5479": {"$update": {"ARO_category": {"$insert": {"36727": {"category_aro_name": "avibactam", "category_aro_cvterm_id": "36727", "category_aro_accession": "3000588", "category_aro_class_name": "Adjuvant", "category_aro_description": "Ser beta-lactamase inhibitor targeting class A, class C, and some class D enzymes."}, "40636": {"category_aro_name": "ceftolozane", "category_aro_cvterm_id": "40636", "category_aro_accession": "3003927", "category_aro_class_name": "Antibiotic", "category_aro_description": "A fifth generation cephalosporin antibiotic."}, "45634": {"category_aro_name": "ceftazidime-avibactam", "category_aro_cvterm_id": "45634", "category_aro_accession": "3007072", "category_aro_class_name": "Antibiotic+Adjuvant", "category_aro_description": "An antibiotic-adjuvant admixture of the beta-lactam antibiotic ceftazidime and the non-beta-lactam beta-lactamase inhibitor avibactam."}, "35977": {"category_aro_name": "ceftazidime", "category_aro_cvterm_id": "35977", "category_aro_accession": "0000060", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ceftazidime is a third-generation cephalosporin antibiotic. 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They are polypeptides with cationic detergent action on cell membranes."}}}}}, "3299": {"$update": {"ARO_category": {"$insert": {"36593": {"category_aro_name": "polymyxin B", "category_aro_cvterm_id": "36593", "category_aro_accession": "3000454", "category_aro_class_name": "Antibiotic", "category_aro_description": "Polymyxin B is mixture of mostly polymyxins B1 and B2, mainly used for resistant gram-negative infections. They are polypeptides with cationic detergent action on cell membranes."}}}}}, "389": {"$update": {"ARO_description": "Tet(W) is a ribosomal protection protein. 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Like other third-generation cephalosporins, it has broad spectrum activity against Gram-positive and Gram-negative bacteria. Unlike most third-generation agents, it is active against Pseudomonas aeruginosa, however it has weaker activity against Gram-positive microorganisms and is not used for such infections."}, "35994": {"category_aro_name": "tazobactam", "category_aro_cvterm_id": "35994", "category_aro_accession": "0000077", "category_aro_class_name": "Adjuvant", "category_aro_description": "Tazobactam is a compound which inhibits the action of bacterial beta-lactamases."}, "40636": {"category_aro_name": "ceftolozane", "category_aro_cvterm_id": "40636", "category_aro_accession": "3003927", "category_aro_class_name": "Antibiotic", "category_aro_description": "A fifth generation cephalosporin antibiotic."}}}}}, "2688": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "735": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "2686": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "2680": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "2682": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "2683": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "1213": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "4774": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"8113": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Citrobacter sp.", "NCBI_taxonomy_id": "1896336", "NCBI_taxonomy_cvterm_id": "43553"}}}}}}}}}}, "2685": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "4604": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6979": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}}}}}}}}}}, "5101": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7476": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Proteus sp. VIITMP5", "NCBI_taxonomy_id": "1009030", "NCBI_taxonomy_cvterm_id": "45688"}}}}}}}}}}, "1991": {"$update": {"ARO_description": "otr(C) is a tetracycline resistance efflux pump found in Streptomyces rimosus.", "CARD_short_name": "otr(C)", "model_name": "otr(C)", "ARO_name": "otr(C)"}}, "4078": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6451": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Salmonella enterica", "NCBI_taxonomy_id": "28901", "NCBI_taxonomy_cvterm_id": "35672"}}}}}}}}}}, "4680": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7055": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Citrobacter freundii", "NCBI_taxonomy_id": "546", "NCBI_taxonomy_cvterm_id": "36915"}}}}}}}}}}, "4528": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6903": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}}}}}}}}}}, "5220": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7595": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Raoultella ornithinolytica", "NCBI_taxonomy_id": "54291", "NCBI_taxonomy_cvterm_id": "45686"}}}}}}}}}}, "3888": {"$update": {"ARO_description": "Tetracycline resistance gene tet(X) ortholog described by Fang et al. 2020.", "CARD_short_name": "tet(X1)", "model_name": "tet(X1)", "ARO_name": "tet(X1)"}}, "1106": {"$update": {"ARO_category": {"$update": {"40951": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "2020": {"$update": {"ARO_description": "Tet(O) is a ribosomal protection protein. It is associated with conjugative plasmids.", "CARD_short_name": "tet(O)", "ARO_name": "tet(O)", "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "300"}}}}, "model_name": "tet(O)"}}, "720": {"$update": {"ARO_description": "Bacillus cereus beta-lactamase I is a class A beta-lactamase that breaks down a number of penicillins and cephalosporins in the Bacillus cereus strain 569/H/9.", "ARO_category": {"$delete": ["36017", "36716"], "$insert": {"45667": {"category_aro_name": "class A Bacillus cereus Bc beta-lactamase", "category_aro_cvterm_id": "45667", "category_aro_accession": "3007100", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Class A Bacillus cereus Bc beta-lactamases are enzymes that break down beta-lactam antibiotics, particularly penicillins."}, "40360": {"category_aro_name": "penem", "category_aro_cvterm_id": "40360", "category_aro_accession": "3003706", "category_aro_class_name": "Drug Class", "category_aro_description": "Penems are a class of unsaturated beta-lactam antibiotics with a broad spectrum of antibacterial activity and have a structure which renders them highly resistant to beta-lactamases. All penems are all synthetically made and act by inhibiting the synthesis of the peptidoglycan layer of bacterial cell walls. They are structurally similar to carbapenems, however, where carbapenems have a carbon, penems have a sulfur."}}}, "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "350"}}}}}}, "4080": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6453": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}}}}}}}}}}, "4082": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6455": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Enterobacter cloacae", "NCBI_taxonomy_id": "550", "NCBI_taxonomy_cvterm_id": "36884"}}}}}}}}}}, "600": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "5630": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"8005": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}}}}}}}}}}, "4718": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7093": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Raoultella ornithinolytica", "NCBI_taxonomy_id": "54291", "NCBI_taxonomy_cvterm_id": "45686"}}}}}}}}}}, "235": {"$update": {"ARO_category": {"$update": {"40951": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}, "40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "5643": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"8018": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Enterobacter cloacae", "NCBI_taxonomy_id": "550", "NCBI_taxonomy_cvterm_id": "36884"}}}}}}}}}}, "3349": {"$update": {"CARD_short_name": "tet(U)", "model_name": "tet(U)", "ARO_name": "tet(U)"}}, "2131": {"$update": {"model_param": {"$update": {"snp": {"$update": {"param_value": {"$insert": {"12595": "G878A"}}, "clinical": {"$insert": {"12595": "G878A"}}}}}}}}, "2138": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "2037": {"$update": {"CARD_short_name": "tet(T)", "ARO_name": "tet(T)", "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "325"}}}}, "model_name": "tet(T)"}}, "1692": {"$update": {"ARO_description": "Tet(M) is a ribosomal protection protein that confers tetracycline resistance. It is found on transposable DNA elements and its horizontal transfer between bacterial species has been documented.", "CARD_short_name": "tet(M)", "ARO_name": "tet(M)", "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "300"}}}}, "model_name": "tet(M)"}}, "3977": {"$update": {"model_sequences": {"$update": {"sequence": {"8462": {"dna_sequence": {"partial": "0", "sequence": "ATGAGTATTCAACATTTCCGTGTCGCCCTTATTCCCTTTTTTGCGGCATTTTGCTTTCCTGTTTTTGCTCACCCAGAAACGCTGGTGAAAGTAAAAGATGCTGAAGATCAGTTGGGTGCACGAGTGGGTTACATCGAGCTGGATCTCAACAGCGGTAAGATCCTTGAGAGTTTTCGCCCCGAAGAACGTTTTCCAATGATGAGCACTTTTAAAGTTCTGCTATGTGGTGCGGTATTATCCCGTGTTGACGCCGGGCAAGAGCAACTCGGTCGCCGCATACACTATTCTCAGAATGACTTGGTTAAGTACTCACCAGTCACAGAAAAGCATCTTACGGATGGCATGACAGTAAGAGAATTATGCAGTGCTGCCATAACCATGAGTGATAACACTGCGGCCAACTTACTTCTGACAACGATCGGAGGACCGAAGGAGCTAACCGCTTTTTTGCACAACATGGGGGATCATGTAACCCGCCTTGATAGTTGGGAACCGGAGCTGAATGAAGCCATACCAAACGACGAGCGTGACACCACGATGCCTGCAGCAATGGCAACAACGTTGCGCAAACTATTAACTGGCGAACTACTTACTCTAGCTTCCCGGCAACAATTAATAGACTGGATGGAGGCGGATAAAGTTGCAGGACCACTTCTGCGCTCGGCCCTTCCGGCTGGCTGGTTTATTGCTGATAAATCTGGAGCCGGTGAGCGTGGATCTCGCGGTATCATTGCAGCACTGGGGCCAGATGGTAAGCCCTCCCGTATCGTAGTTATCTACATGACGGGGAGTCAGGCAACTATGGATGAACGAAATAGACAGATCGCTGAGATAGGTGCCTCACTGATTAAGCATTGGTAA", "fmax": "861", "accession": "NG_056168.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "WP_102607453.1", "sequence": "MSIQHFRVALIPFFAAFCFPVFAHPETLVKVKDAEDQLGARVGYIELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRVDAGQEQLGRRIHYSQNDLVKYSPVTEKHLTDGMTVRELCSAAITMSDNTAANLLLTTIGGPKELTAFLHNMGDHVTRLDSWEPELNEAIPNDERDTTMPAAMATTLRKLLTGELLTLASRQQLIDWMEADKVAGPLLRSALPAGWFIADKSGAGERGSRGIIAALGPDGKPSRIVVIYMTGSQATMDERNRQIAEIGASLIKHW"}}}}}}}, "3979": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6343": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Shigella sonnei", "NCBI_taxonomy_id": "624", "NCBI_taxonomy_cvterm_id": "36790"}}}}}}}}}}, "3978": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6342": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}}}}}}}}}}, "774": {"$update": {"ARO_description": "tet(37) is a chromosome-encoded oxidoreductase isolated from an uncultured bacterium that confers resistance to tetracycline.", "CARD_short_name": "tet(37)", "model_name": "tet(37)", "ARO_name": "tet(37)"}}, "776": {"$update": {"ARO_description": "Tet(X) is a flavin-dependent monooxygenase conferring resistance to tetracycline antibiotics. Tet(X) hydroxylates position 11a of the tetraketide group thus inactivating the antibiotic.", "CARD_short_name": "tet(X)", "model_name": "tet(X)", "ARO_name": "tet(X)"}}, "1474": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "1171": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "300"}}}}}}, "898": {"$update": {"ARO_category": {"$insert": {"36727": {"category_aro_name": "avibactam", "category_aro_cvterm_id": "36727", "category_aro_accession": "3000588", "category_aro_class_name": "Adjuvant", "category_aro_description": "Ser beta-lactamase inhibitor targeting class A, class C, and some class D enzymes."}, "40636": {"category_aro_name": "ceftolozane", "category_aro_cvterm_id": "40636", "category_aro_accession": "3003927", "category_aro_class_name": "Antibiotic", "category_aro_description": "A fifth generation cephalosporin antibiotic."}, "45634": {"category_aro_name": "ceftazidime-avibactam", "category_aro_cvterm_id": "45634", "category_aro_accession": "3007072", "category_aro_class_name": "Antibiotic+Adjuvant", "category_aro_description": "An antibiotic-adjuvant admixture of the beta-lactam antibiotic ceftazidime and the non-beta-lactam beta-lactamase inhibitor avibactam."}, "35977": {"category_aro_name": "ceftazidime", "category_aro_cvterm_id": "35977", "category_aro_accession": "0000060", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ceftazidime is a third-generation cephalosporin antibiotic. Like other third-generation cephalosporins, it has broad spectrum activity against Gram-positive and Gram-negative bacteria. Unlike most third-generation agents, it is active against Pseudomonas aeruginosa, however it has weaker activity against Gram-positive microorganisms and is not used for such infections."}, "35994": {"category_aro_name": "tazobactam", "category_aro_cvterm_id": "35994", "category_aro_accession": "0000077", "category_aro_class_name": "Adjuvant", "category_aro_description": "Tazobactam is a compound which inhibits the action of bacterial beta-lactamases."}, "42779": {"category_aro_name": "ceftolozane-tazobactam", "category_aro_cvterm_id": "42779", "category_aro_accession": "3004724", "category_aro_class_name": "Antibiotic+Adjuvant", "category_aro_description": "An antibiotic cocktail containing the cephalosporin antibiotic ceftolozane and the beta-lactamase inhibitor tazobactam."}}}}}, "1273": {"$update": {"ARO_description": "Streptomyces rimosus otr(A) is an oxytetracycline resistance ribosomal protection protein found in Streptomyces rimosus.", "CARD_short_name": "otr(A)S.rim", "ARO_name": "Streptomyces rimosus otr(A)", "model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "275"}}}}, "model_name": "Streptomyces rimosus otr(A)"}}, "5208": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7583": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}}}}}}}}}}, "5042": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7417": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}}}}}}}}}}, "3383": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"5569": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Salmonella enterica subsp. enterica serovar Cubana str. CFSAN002050", "NCBI_taxonomy_id": "1271863", "NCBI_taxonomy_cvterm_id": "45689"}}}}}}}}}}, "4715": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7090": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Enterobacter cloacae", "NCBI_taxonomy_id": "550", "NCBI_taxonomy_cvterm_id": "36884"}}}}}}}}}}, "_timestamp": "2022-06-14T14:34:13+00:00", "944": {"$update": {"ARO_category": {"$insert": {"35959": {"category_aro_name": "bacitracin", "category_aro_cvterm_id": "35959", "category_aro_accession": "0000041", "category_aro_class_name": "Antibiotic", "category_aro_description": "Bacitracin is a mixture of related cyclic polypeptides produced by organisms of the licheniformis group of Bacillus subtilis var Tracy. Bacitracin interferes with the dephosphorylation of the C55-isoprenyl pyrophosphate, a molecule which carries the building blocks of the peptidoglycan bacterial cell wall outside of the inner membrane."}}}}}, "3548": {"$update": {"ARO_category": {"$insert": {"36727": {"category_aro_name": "avibactam", "category_aro_cvterm_id": "36727", "category_aro_accession": "3000588", "category_aro_class_name": "Adjuvant", "category_aro_description": "Ser beta-lactamase inhibitor targeting class A, class C, and some class D enzymes."}, "42779": {"category_aro_name": "ceftolozane-tazobactam", "category_aro_cvterm_id": "42779", "category_aro_accession": "3004724", "category_aro_class_name": "Antibiotic+Adjuvant", "category_aro_description": "An antibiotic cocktail containing the cephalosporin antibiotic ceftolozane and the beta-lactamase inhibitor tazobactam."}, "45634": {"category_aro_name": "ceftazidime-avibactam", "category_aro_cvterm_id": "45634", "category_aro_accession": "3007072", "category_aro_class_name": "Antibiotic+Adjuvant", "category_aro_description": "An antibiotic-adjuvant admixture of the beta-lactam antibiotic ceftazidime and the non-beta-lactam beta-lactamase inhibitor avibactam."}, "35977": {"category_aro_name": "ceftazidime", "category_aro_cvterm_id": "35977", "category_aro_accession": "0000060", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ceftazidime is a third-generation cephalosporin antibiotic. Like other third-generation cephalosporins, it has broad spectrum activity against Gram-positive and Gram-negative bacteria. Unlike most third-generation agents, it is active against Pseudomonas aeruginosa, however it has weaker activity against Gram-positive microorganisms and is not used for such infections."}, "35994": {"category_aro_name": "tazobactam", "category_aro_cvterm_id": "35994", "category_aro_accession": "0000077", "category_aro_class_name": "Adjuvant", "category_aro_description": "Tazobactam is a compound which inhibits the action of bacterial beta-lactamases."}, "40636": {"category_aro_name": "ceftolozane", "category_aro_cvterm_id": "40636", "category_aro_accession": "3003927", "category_aro_class_name": "Antibiotic", "category_aro_description": "A fifth generation cephalosporin antibiotic."}}}}}, "355": {"$update": {"ARO_category": {"$update": {"40951": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}, "40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "352": {"$update": {"ARO_category": {"$update": {"40924": {"$update": {"category_aro_class_name": "Antibiotic+Adjuvant"}}}}}}, "4990": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"7365": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}}}}}}}}}}, "3985": {"$update": {"model_sequences": {"$update": {"sequence": {"$update": {"6349": {"$update": {"NCBI_taxonomy": {"$update": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}}}}}}}}}}, "804": {"$update": {"model_param": {"$update": {"blastp_bit_score": {"$update": {"param_value": "400"}}}}}}}, "$delete": ["3306", "3307", "5760"], "$insert": {"5768": {"model_id": "5768", "ARO_accession": "3007075", "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": "cph is a phosphotransferase that confers resistance to capreomycin.", "model_sequences": {"sequence": {"8439": {"dna_sequence": {"partial": "0", "sequence": "ATGACCTTGTCCCACCTTGTTGACGTGGTTCGGCGTGCCCACCCGGATGTCGATCTTGAGGGTGCCGGTGTGCACTCCGGCCAGTTCCACGACGTGTTGATCGCGCGTGACCGGGTGTTCCGGTTTCCCAAGACGGCTGGCGCGGCGGCGGAGCTGCCGGGTCGGGTGGCGGTGCTGACGGCGGTCGACGCGGTGGAGCTGGGGGTGGGGGTGCCGGTTCCGCTGTCGGAGGTGCGGGACGGCGGTCCGCACGGGTTCCTGGTGCTCAGCCGGCTGCACGGCACGCCGTTGGAGCGGGGGGACGCGACGTCGCCCGAGGTGATCGACGTCGTGGCCGCCGAGTTCGCGCGGGTGTTGCGGGCGATGGCCGGCGCTGATGTGGAGAAGTTGCGGCTGGTGCTGCCGGTCGCCGACGCCGGGCGGTGGCGCGGGTTCGCCGGGCGGGTCCGGGCGACGCTGTTCCCGCTGATGTCGGAGGACGGCCGGGCGCGGGCCGAGCGCGAGTTGGCGGCGGCCGTGGCGATGGACCACGTCGCCACCGGGTTGGTGCACGGGGATCTCGGCGGGGAGAACGTGTTGTGGCAGCAGGTCGAGGAGCTGCCGCGGCTGACCGGGATCGTGGACTGGGACGAGGCCAAGGTGGGCGACCCGGCGGAGGACCTGGCGGCGGTGGGGGCCAGTTATGGGCCTGAGCTGGTGGAGCGGGTGGTCGCGCTGCTCGGGGCGGGGGACCTGTGGCCGCGGATCCGGGCTTACCAGGGGACGTTCGCGTTGCAGCAGGCGCTGGCGGGTGCCGAGGACGGCGACGACGAAGAACTGGAAGACGGCCTGACCGCCTACCGCTGA", "fmax": "1051", "accession": "U13078.1", "fmin": "205", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Saccharothrix mutabilis subsp. capreolus", "NCBI_taxonomy_id": "66854", "NCBI_taxonomy_cvterm_id": "45638"}, "protein_sequence": {"accession": "AAA92037.1", "sequence": "MTLSHLVDVVRRAHPDVDLEGAGVHSGQFHDVLIARDRVFRFPKTAGAAAELPGRVAVLTAVDAVELGVGVPVPLSEVRDGGPHGFLVLSRLHGTPLERGDATSPEVIDVVAAEFARVLRAMAGADVEKLRLVLPVADAGRWRGFAGRVRATLFPLMSEDGRARAERELAAAVAMDHVATGLVHGDLGGENVLWQQVEELPRLTGIVDWDEAKVGDPAEDLAAVGASYGPELVERVVALLGAGDLWPRIRAYQGTFALQQALAGAEDGDDEELEDGLTAYR"}}}}, "model_name": "cph", "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."}, "40875": {"category_aro_name": "capreomycin", "category_aro_cvterm_id": "40875", "category_aro_accession": "3003993", "category_aro_class_name": "Antibiotic", "category_aro_description": "Capreomycin is an aminoglycoside antibiotic, capable of treating a large number of infections but in particular used for killing bacteria causing tuberculosis."}, "35935": {"category_aro_name": "aminoglycoside antibiotic", "category_aro_cvterm_id": "35935", "category_aro_accession": "0000016", "category_aro_class_name": "Drug Class", "category_aro_description": "Aminoglycosides are a group of antibiotics that are mostly effective against Gram-negative bacteria. These molecules consist of aminated sugars attached to a dibasic cyclitol. Aminoglycosides work by binding to the bacterial 30S ribosomal subunit (some work by binding to the 50S subunit), inhibiting the translocation of the peptidyl-tRNA from the A-site to the P-site and also causing misreading of mRNA, leaving the bacterium unable to synthesize proteins vital to its growth."}, "45636": {"category_aro_name": "capreomycin phosphotransferase", "category_aro_cvterm_id": "45636", "category_aro_accession": "3007074", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Capreomycin family of phosphotransferases confer resistance to capreomycin antibiotics."}}, "ARO_name": "cph", "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.", "CARD_short_name": "cph", "ARO_id": "45637", "model_type_id": "40292"}, "5769": {"model_id": "5769", "ARO_accession": "3007085", "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": "PRC-1 is a beta-lactamase that confers resistance to certain cephalosporins and penicillins.", "model_sequences": {"sequence": {"8440": {"dna_sequence": {"partial": "0", "sequence": "ATGCGCCACCTGTACCGCCCTCTGTTCGTCGCCCTGGCGCTGCTGGCCGCCAGCCACGCGCCGGCCGCACCTTCACTGGAAACACAGGTGGACGCCGCTGCGAAGTCGATGATGCAGACCCATGCCATTCCCGGCATGGCCATCGCCATCAGCCACAAGGGGCAGTCGCATTTCTTCGAATACGGCGTCGCATCCCTTGAAAACGGCCAGACGGTGGATCGCCATACCCTTTTCGAGCTGGGCTCGATCAGCAAACTCTTCACCGCCACCCTCGGCGCCTACGCCGAAGCGCGCGGCACGCTGAACCTCAGTGACAACGCCAGCCAGTATCTGCCGGCCCTGCAGGGCAGCGCCTTCGATCACATCAGTTTGCTGGATCTGGCCACTTACACCTCGGGCGGCCTGCCACTGCAGTTCCCGGACACGGTCAGCAACGAACGGCAGATGCTCGATTACTACCGCAACTGGCAGGCGGTGTATCCGCCGGGTACGCAGCGGCTGTATTCCAACCCCAGCATCGGCCTGTTCGGCCACCTGGCAGCAGCCAGTCTGGCCAAGCCGTTTCAGCAGTTGATGGAGAAGGATCTGCTGCCGCAACTGAGCATGCAGGAAAGCTACGTCCGTATACCGACCGAGCAGATGGAGCACTATGCCTGGGGCTACCGCGACGACAAGGCGGTGCGCGTGACGCCCGGCGCGCTGGATGCCGAAGCCTACGGGTTGAAATCTACTGCCGCCGACGTGCTACGCTTCATCGACGCCAATCTGCACCCGGATCAACTACCCGCACCACTGCGCCAGGCGATCAGCGCAACACATCGTGGCTACTACCAGGTCGGCGACATGACTCAGGCGCTGGGCTGGGAGCGCTACGCCTACCCCATCAGCCTAGAAAAACTGCAGGCTGGCAACTCAGCAGAAATGGCGCTGCAACCGCAGACCGTGGCGCGTTTCGCTGCGCCCAAGCCTGCCGAAGGTGACCTGCTGCTGAACAAGACCGGCTCGACCAACGGCTTCGGCGCCTACATCCTACTGCTGCCGGCGCGCGATACCGGCCTGGTGATACTCGCCAACCGCAATTACCCCAATGCCGAACGCGTGCGCCTGGCCTTGCAATTGCTGGACGCGATCGAGCCGTAG", "fmax": "1140", "accession": "MW854031.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Pseudomonas wenzhouensis", "NCBI_taxonomy_id": "2906062", "NCBI_taxonomy_cvterm_id": "45649"}, "protein_sequence": {"accession": "QTV22830.1", "sequence": "MRHLYRPLFVALALLAASHAPAAPSLETQVDAAAKSMMQTHAIPGMAIAISHKGQSHFFEYGVASLENGQTVDRHTLFELGSISKLFTATLGAYAEARGTLNLSDNASQYLPALQGSAFDHISLLDLATYTSGGLPLQFPDTVSNERQMLDYYRNWQAVYPPGTQRLYSNPSIGLFGHLAAASLAKPFQQLMEKDLLPQLSMQESYVRIPTEQMEHYAWGYRDDKAVRVTPGALDAEAYGLKSTAADVLRFIDANLHPDQLPAPLRQAISATHRGYYQVGDMTQALGWERYAYPISLEKLQAGNSAEMALQPQTVARFAAPKPAEGDLLLNKTGSTNGFGAYILLLPARDTGLVILANRNYPNAERVRLALQLLDAIEP"}}}}, "model_name": "PRC-1", "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 are a group of antibiotics derived from Penicillium fungi that share a skeleton beta-lactam moiety fused with a thiazolidine ring. This is the most defining feature of penicillins. 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."}, "45647": {"category_aro_name": "PRC beta-lactamase", "category_aro_cvterm_id": "45647", "category_aro_accession": "3007084", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "PRC beta-lactamases are class C beta-lactamases."}, "36976": {"category_aro_name": "benzylpenicillin", "category_aro_cvterm_id": "36976", "category_aro_accession": "3000632", "category_aro_class_name": "Antibiotic", "category_aro_description": "Benzylpenicillin, commonly referred to as penicillin G, is effective against both Gram-positive and Gram-negative bacteria. It is unstable in acid."}, "36989": {"category_aro_name": "cefotaxime", "category_aro_cvterm_id": "36989", "category_aro_accession": "3000645", "category_aro_class_name": "Antibiotic", "category_aro_description": "Cefotaxime is a semisynthetic cephalosporin taken parenterally. It is resistant to most beta-lactamases and active against Gram-negative rods and cocci due to its aminothiazoyl and methoximino functional groups."}, "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."}, "36981": {"category_aro_name": "ampicillin", "category_aro_cvterm_id": "36981", "category_aro_accession": "3000637", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ampicillin is a penicillin derivative that is highly acid stable, with its activity similar to benzylpenicillin."}, "35979": {"category_aro_name": "ceftriaxone", "category_aro_cvterm_id": "35979", "category_aro_accession": "0000062", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ceftriaxone is a third-generation cephalosporin antibiotic. The presence of an aminothiazolyl sidechain increases ceftriazone's resistance to beta-lactamases. Like other third-generation cephalosporins, it has broad spectrum activity against Gram-positive and Gram-negative bacteria."}}, "ARO_name": "PRC-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.", "CARD_short_name": "PRC-1", "ARO_id": "45648", "model_type_id": "40292"}, "5766": {"model_id": "5766", "ARO_accession": "3007070", "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-type colistin resistance gene variant, first described in a multi-drug-resistant Escherichia coli isolate recovered from a urinary tract infection, and co-occurring with the carbapenemase NDM-5.", "model_sequences": {"sequence": {"8433": {"dna_sequence": {"partial": "0", "sequence": "ATGATGCAGCATACTTCTGTGTGGTACCGACGCTCGGTCAGTCCGTTTGTTCTTGTGGCGAGTGTTGCCGTTTTCTTGACCGCGACCGCCAATCTTACCTTTTTTGATAAAATCAGCCAAACCTATCCCATCGCGGACAATCTCGGCTTTGTGCTGACGATCGCTGTCGTGCTCTTTGGCGCGATGCTACTGATCACCACGCTGTTATCATCGTATCGCTATGTGCTAAAGCCTGTGTTGATTTTGCTATTAATCATGGGCGCGGTGACCAGTTATTTTACTGACACTTATGGCACGGTCTATGATACGACCATGCTCCAAAATGCCCTACAGACCGACCAAGCCGAGACCAAGGATCTATTAAACGCAGCGTTTATCATGCGTATCATTGGTTTGGGTGTGCTACCAAGTTTGCTTGTGGCTTTTGTTAAGGTGGATTATCCGACTTGGGGCAAGGGTTTGATGCGCCGATTGGGCTTGATCGTGGCAAGTCTTGCGCTGATTTTACTGCCTGTGGTGGCGTTCAGCAGTCATTATGCCAGTTTCTTTCGCGTGCATAAGCCGCTGCGTAGCTATGTCAATCCGATCATGCCAATCTACTCGGTGGGTAAGCTTGCCAGTATTGGGTATAAAAAAGCCAGTGCGCCAAAAGATACCATTTATCACGCCAAAGACGCGGTACAAGCAACCAAGCCTGATATGCGTAAGCCACGCCTAGTGGTGTTCGTCGTCGGTGAGACGGCACGCGCCGATCATGTCAGCTTCAATGGCTATGAGCGCGATACTTTCCCACAGCTTGCCAAGATCGATGGCGTGACCAATTTTAGCAATGTCACATCGTGCGGCACATCGACGGCGTATTCTGTGCCGTGTATGTTCAGCTATCTGGGCGCGGATGAGTATGATGTCGATACCGCCAAATACCAAGAAAATGTGCTGGATACGCTGGATCGCTTGGGCGTAAGTATCTTGTGGCGTGATAATAATTCGGACTCAAAAGGCGTGATGGATAAGCTGCCAAAAGCGCAATTTGCCGATTATAAATCCGCGACCAACAACGCCATCTGCAACACCAATCCTTATAACGAATGCCGCGATGTCGGTATGCTCGTTGGCTTAGATGACTTTGTCGCTGCCAATAACGGCAAAGATATGCTGATCATGCTGCACCAAATGGGCAATCACGGGCCTGCGTATTTTAAGCGATATGATGAAAAGTTTGCCAAATTCACGCCAGTGTGTGAAGGTAATGAGCTTGCCAAGTGCGAACATCAGTCCTTGATCAATGCTTATGACAATGCCTTGCTTGCCACCGATGATTTCATCGCTCAAAGTATCCAGTGGCTGCAGACGCACAGCAATGCCTATGATGTCTCAATGCTGTATGTCAGCGATCATGGCGAAAGTCTGGGTGAGAACGGTGTCTATCTACATGGTATGCCAAATGCCTTTGCACCAAAAGAACAGCGCAGTGTGCCTGCATTTTTCTGGACGGATAAGCAAACTGGCATCACGCCAATGGCAACCGATACCGTCCTGACCCATGACGCGATCACGCCGACATTATTAAAGCTGTTTGATGTCACCGCGGACAAAGTCAAAGACCGCACCGCATTCATCCGCTGA", "fmax": "1626", "accession": "OL624718.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Escherichia coli", "NCBI_taxonomy_id": "562", "NCBI_taxonomy_cvterm_id": "35914"}, "protein_sequence": {"accession": "UGY30527.1", "sequence": "MMQHTSVWYRRSVSPFVLVASVAVFLTATANLTFFDKISQTYPIADNLGFVLTIAVVLFGAMLLITTLLSSYRYVLKPVLILLLIMGAVTSYFTDTYGTVYDTTMLQNALQTDQAETKDLLNAAFIMRIIGLGVLPSLLVAFVKVDYPTWGKGLMRRLGLIVASLALILLPVVAFSSHYASFFRVHKPLRSYVNPIMPIYSVGKLASIGYKKASAPKDTIYHAKDAVQATKPDMRKPRLVVFVVGETARADHVSFNGYERDTFPQLAKIDGVTNFSNVTSCGTSTAYSVPCMFSYLGADEYDVDTAKYQENVLDTLDRLGVSILWRDNNSDSKGVMDKLPKAQFADYKSATNNAICNTNPYNECRDVGMLVGLDDFVAANNGKDMLIMLHQMGNHGPAYFKRYDEKFAKFTPVCEGNELAKCEHQSLINAYDNALLATDDFIAQSIQWLQTHSNAYDVSMLYVSDHGESLGENGVYLHGMPNAFAPKEQRSVPAFFWTDKQTGITPMATDTVLTHDAITPTLLKLFDVTADKVKDRTAFIR"}}}}, "model_name": "MCR-1.33", "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-1.33", "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.", "CARD_short_name": "MCR-1.33", "ARO_id": "45632", "model_type_id": "40292"}, "5767": {"model_id": "5767", "ARO_accession": "3007073", "model_param": {"blastp_bit_score": {"param_value": "2300", "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": {"12589": "S487L", "12590": "A478N", "12591": "Q469K", "12592": "Q469R", "12593": "H482Y"}, "clinical": {"12589": "S487L", "12590": "A478N", "12591": "Q469K", "12592": "Q469R", "12593": "H482Y"}, "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 that occur within the Bacillus subtilis rpoB gene resulting in resistance to rifampin.", "model_sequences": {"sequence": {"8438": {"dna_sequence": {"partial": "0", "sequence": "TTGACAGGTCAACTAGTTCAGTATGGACGACACCGCCAGCGCAGAAGCTATGCTCGCATTAGCGAAGTGTTAGAATTACCAAATCTCATTGAAATTCAAACCTCTTCTTATCAGTGGTTTCTTGATGAGGGTCTTAGAGAGATGTTTCAAGACATATCACCAATTGAGGATTTCACTGGTAACCTCTCTCTTGAGTTCATTGATTATAGTTTAGGTGAGCCTAAATATCCTGTAGAGGAATCAAAAGAACGTGATGTGACTTACTCAGCTCCGCTAAGAGTGAAGGTTCGTTTAATTAACAAAGAAACTGGAGAGGTAAAAGACCAAGATGTCTTCATGGGTGATTTCCCTATTATGACAGATACAGGTACTTTTATCATTAACGGTGCGGAACGTGTTATCGTTTCCCAGCTTGTTCGGTCTCCAAGTGTATATTTCAGTGGTAAAGTAGACAAAAACGGTAAAAAAGGTTTTACCGCAACTGTCATTCCAAACCGTGGCGCATGGTTAGAATACGAAACTGATGCGAAAGATGTTGTTTATGTCCGCATTGATCGCACACGTAAGTTGCCGGTTACGGTTCTTTTGCGTGCTCTCGGCTTCGGCTCCGATCAAGAGATTCTTGATCTCATAGGAGAAAACGAATACCTGCGAAATACGCTTGATAAAGATAACACAGAAAACAGCGACAAAGCGTTGCTGGAAATTTACGAGCGTCTCCGTCCTGGAGAGCCGCCTACAGTAGAAAATGCGAAAAGCTTGCTTGATTCTCGTTTCTTTGATCCGAAACGATACGATCTTGCCAATGTAGGACGCTATAAAATTAATAAAAAACTTCATATTAAGAATCGCCTCTTCAATCAGAGACTTGCTGAAACGCTTGTTGATCCTGAAACAGGAGAAATCCTTGCTGAAAAAGGCCAGATTCTTGATAGAAGAACGCTTGATAAAGTACTGCCATACTTAGAAAACGGAATCGGTTTTAGAAAGCTGTATCCGAATGGCGGCGTTGTTGAAGATGAAGTGACTCTTCAATCAATTAAAATCTTTGCTCCGACTGATCAAGAAGGAGAACAGGTTATCAATGTAATCGGCAATGCTTACATCGAAGAAGAGATTAAAAACATCACGCCTGCTGATATTATTTCTTCAATCAGCTACTTCTTCAACCTGCTGCACGGAGTAGGCGACACAGATGATATCGATCATCTTGGAAACCGCCGTTTACGTTCTGTAGGCGAGCTTCTCCAGAACCAATTCCGTATCGGTTTAAGCCGTATGGAGCGTGTGGTTCGTGAGAGAATGTCAATTCAAGATACGAATACAATTACGCCTCAGCAGCTGATCAATATTCGTCCTGTTATTGCGTCCATTAAAGAGTTCTTTGGAAGCTCACAGCTTTCTCAATTCATGGATCAGACGAACCCGCTTGCTGAATTAACGCACAAGCGTCGTCTGTCAGCATTAGGACCGGGCGGATTGACACGTGAGCGTGCCGGAATGGAAGTGCGTGACGTTCACTACTCCCACTATGGCCGTATGTGTCCGATTGAAACGCCTGAGGGCCCGAACATCGGTTTGATCAACTCACTATCATCTTATGCAAAAGTAAACCGTTTTGGCTTTATTGAAACGCCATATCGCCGCGTTGACCCTGAAACAGGGAAGGTAACGGGCAGAATCGATTACTTAACTGCTGATGAAGAGGATAACTATGTTGTCGCTCAAGCGAATGCTCGTCTTGATGACGAAGGCGCCTTTATTGATGACAGCATCGTAGCTCGTTTCCGCGGGGAGAACACCGTTGTTTCCAGAAATCGTGTAGACTACATGGATGTATCGCCTAAGCAGGTTGTATCTGCTGCGACAGCATGTATCCCGTTCTTAGAAAACGATGACTCCAACCGTGCCCTCATGGGAGCGAACATGCAGCGTCAGGCTGTGCCTTTGATGCAGCCGGAAGCGCCATTTGTTGGAACTGGTATGGAATACGTATCAGGAAAAGACTCTGGTGCCGCTGTTATTTGTAAACACCCTGGTATCGTTGAACGCGTAGAAGCCAAAAACGTTTGGGTTCGCCGTTATGAAGAAGTAGACGGTCAAAAAGTAAAAGGAAACCTGGATAAATACAGCCTGCTGAAATTTGTCCGCTCTAACCAAGGTACGTGCTACAACCAGCGTCCGATCGTAAGTGTCGGCGATGAAGTGGTAAAAGGAGAAATCCTTGCTGACGGTCCTTCTATGGAGCTTGGTGAACTTGCACTTGGCCGTAACGTAATGGTCGGCTTCATGACGTGGGATGGCTACAACTATGAGGATGCCATCATCATGAGTGAACGCCTAGTGAAGGATGATGTTTATACATCTATCCACATTGAAGAATACGAATCAGAAGCACGTGATACGAAACTTGGACCTGAAGAAATCACTCGCGATATTCCAAACGTCGGTGAAGATGCGCTTCGCAATCTTGATGACCGCGGAATCATCCGTATTGGGGCAGAAGTAAAAGACGGAGATCTTCTTGTTGGTAAAGTAACGCCTAAAGGCGTAACTGAACTGACTGCCGAAGAACGCCTTCTTCACGCCATCTTTGGCGAGAAAGCCCGCGAGGTTCGTGATACTTCTCTTCGTGTGCCTCATGGCGGCGGCGGAATTATCCATGACGTTAAAGTCTTCAACCGTGAAGACGGAGACGAACTTCCTCCAGGTGTTAACCAGTTAGTACGCGTATATATCGTTCAGAAACGTAAGATTTCTGAAGGGGATAAAATGGCCGGTCGTCACGGTAACAAAGGTGTTATCTCTAAGATTCTTCCTGAAGAGGATATGCCTTACCTTCCTGACGGCACACCAATTGATATCATGCTTAACCCGCTGGGCGTACCATCACGTATGAACATCGGGCAGGTATTGGAACTTCACATGGGTATGGCCGCTCGTTACCTTGGCATTCACATTGCATCTCCTGTATTTGACGGAGCGCGAGAAGAGGATGTCTGGGAAACACTTGAAGAAGCCGGCATGTCTCGTGACGCCAAAACAGTGCTTTACGACGGACGTACTGGAGAGCCGTTTGATAACCGTGTATCTGTCGGTATCATGTACATGATCAAACTGGCTCACATGGTTGACGATAAACTTCATGCACGCTCTACAGGCCCTTACTCACTTGTTACGCAGCAGCCTCTTGGCGGTAAAGCGCAATTTGGCGGACAGCGTTTTGGTGAGATGGAGGTTTGGGCACTTGAAGCTTACGGTGCGGCTTACACTCTTCAAGAAATTCTGACTGTTAAGTCTGATGACGTGGTTGGACGTGTGAAAACATACGAAGCCATCGTTAAAGGCGACAATGTTCCTGAACCAGGTGTTCCGGAATCATTCAAAGTATTAATCAAAGAACTTCAAAGCTTAGGTATGGATGTCAAAATCCTTTCTGGTGATGAAGAAGAAATAGAAATGAGAGATTTAGAAGACGAAGAAGATGCGAAACAAGCTGACGGCCTGGCATTATCAGGTGATGAAGAGCCGGAAGAAACAGCATCTGCAGACGTTGAACGCGATGTAGTAACAAAAGAATAA", "fmax": "125500", "accession": "AL009126.3", "fmin": "121918", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus subtilis subsp. subtilis str. 168", "NCBI_taxonomy_id": "224308", "NCBI_taxonomy_cvterm_id": "39579"}, "protein_sequence": {"accession": "CAB11883.2", "sequence": "MTGQLVQYGRHRQRRSYARISEVLELPNLIEIQTSSYQWFLDEGLREMFQDISPIEDFTGNLSLEFIDYSLGEPKYPVEESKERDVTYSAPLRVKVRLINKETGEVKDQDVFMGDFPIMTDTGTFIINGAERVIVSQLVRSPSVYFSGKVDKNGKKGFTATVIPNRGAWLEYETDAKDVVYVRIDRTRKLPVTVLLRALGFGSDQEILDLIGENEYLRNTLDKDNTENSDKALLEIYERLRPGEPPTVENAKSLLDSRFFDPKRYDLANVGRYKINKKLHIKNRLFNQRLAETLVDPETGEILAEKGQILDRRTLDKVLPYLENGIGFRKLYPNGGVVEDEVTLQSIKIFAPTDQEGEQVINVIGNAYIEEEIKNITPADIISSISYFFNLLHGVGDTDDIDHLGNRRLRSVGELLQNQFRIGLSRMERVVRERMSIQDTNTITPQQLINIRPVIASIKEFFGSSQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGMEVRDVHYSHYGRMCPIETPEGPNIGLINSLSSYAKVNRFGFIETPYRRVDPETGKVTGRIDYLTADEEDNYVVAQANARLDDEGAFIDDSIVARFRGENTVVSRNRVDYMDVSPKQVVSAATACIPFLENDDSNRALMGANMQRQAVPLMQPEAPFVGTGMEYVSGKDSGAAVICKHPGIVERVEAKNVWVRRYEEVDGQKVKGNLDKYSLLKFVRSNQGTCYNQRPIVSVGDEVVKGEILADGPSMELGELALGRNVMVGFMTWDGYNYEDAIIMSERLVKDDVYTSIHIEEYESEARDTKLGPEEITRDIPNVGEDALRNLDDRGIIRIGAEVKDGDLLVGKVTPKGVTELTAEERLLHAIFGEKAREVRDTSLRVPHGGGGIIHDVKVFNREDGDELPPGVNQLVRVYIVQKRKISEGDKMAGRHGNKGVISKILPEEDMPYLPDGTPIDIMLNPLGVPSRMNIGQVLELHMGMAARYLGIHIASPVFDGAREEDVWETLEEAGMSRDAKTVLYDGRTGEPFDNRVSVGIMYMIKLAHMVDDKLHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEILTVKSDDVVGRVKTYEAIVKGDNVPEPGVPESFKVLIKELQSLGMDVKILSGDEEEIEMRDLEDEEDAKQADGLALSGDEEPEETASADVERDVVTKE"}}}}, "model_name": "Bacillus subtilis rpoB mutants conferring resistance to rifampin", "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."}, "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."}, "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."}, "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."}}, "ARO_name": "Bacillus subtilis rpoB mutants conferring resistance to rifampin", "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.", "CARD_short_name": "Bsub_rpoB_RIF", "ARO_id": "45635", "model_type_id": "40293"}, "5765": {"model_id": "5765", "ARO_accession": "3007069", "model_param": {"blastp_bit_score": {"param_value": "250", "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 thiol transferase isolated in Staphylococcus aureus that leads to resistance of fosfomycin.", "model_sequences": {"sequence": {"8437": {"dna_sequence": {"partial": "0", "sequence": "ATGCTAAAATCAATTAATCATATTTGCTTTTCAGTGAGTAACTTAAATGATTCAATACATTTCTATAAAAATATACTACGTGGAGAATTATTAGTAAGTGGAAAAACAACTGCTTATTTAATTGTGGGTGGCTTATGGATATCTTTAAATGAAGAAACAGATATTCCTAGAGATGAAATTCAGTTTTCATATACACATATTGCATTTAGTATTGAAGAAGATGAATTTTACGAATGGTATCAAAGATTAAAAGAAAATAACGTAAACATTTTAGAGGGGCGTAATAGAGATGTAAGAGATAAAATGTCTATTTACTTTACTGATCCTGATGGACATAAATTAGAATTGCATACTGGAACACTTAAAGATAGATTAAATTATTATAAAGAAACAAAACCACATATGACCTTTTATGATGAATGA", "fmax": "423", "accession": "MN961674.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Staphylococcus aureus", "NCBI_taxonomy_id": "1280", "NCBI_taxonomy_cvterm_id": "35508"}, "protein_sequence": {"accession": "QTE33800.1", "sequence": "MLKSINHICFSVSNLNDSIHFYKNILRGELLVSGKTTAYLIVGGLWISLNEETDIPRDEIQFSYTHIAFSIEEDEFYEWYQRLKENNVNILEGRNRDVRDKMSIYFTDPDGHKLELHTGTLKDRLNYYKETKPHMTFYDE"}}}}, "model_name": "FosY", "ARO_category": {"35944": {"category_aro_name": "fosfomycin", "category_aro_cvterm_id": "35944", "category_aro_accession": "0000025", "category_aro_class_name": "Drug Class", "category_aro_description": "Fosfomycin (also known as phosphomycin and phosphonomycin) is a broad-spectrum antibiotic produced by certain Streptomyces species. It is effective on gram positive and negative bacteria as it targets the cell wall, an essential feature shared by both bacteria. Its specific target is MurA (MurZ in E.coli), which attaches phosphoenolpyruvate (PEP) to UDP-N-acetylglucosamine, a step of commitment to cell wall synthesis. In the active site of MurA, the active cysteine molecule is alkylated which stops the catalytic reaction."}, "36272": {"category_aro_name": "fosfomycin thiol transferase", "category_aro_cvterm_id": "36272", "category_aro_accession": "3000133", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Catalyzes the addition of a thiol group from a nucleophilic molecule to fosfomycin."}, "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."}}, "ARO_name": "FosY", "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.", "CARD_short_name": "FosY", "ARO_id": "45631", "model_type_id": "40292"}, "5784": {"model_id": "5784", "ARO_accession": "3007111", "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": "nimI is a nitroimidazole reductase discovered in the Prevotella baroniae that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Although not found in Bacteroids fragilis, the source organism of most nim genes, nimI shares significant similarity with other nitroimidazole reductases. nimI is chromosomally encoded in P. baroniae, suggesting that it is intrinsic to this species.", "model_sequences": {"sequence": {"8459": {"dna_sequence": {"partial": "0", "sequence": "ATGAATCGTTTGGACAATATGGAATTTAGAGAAATGCGGCGCAAACGCCAGCAACTTTCAGACGCGGAGTGCGTCGGAATCCTGGAGAACGCCACGTCGGGAACCCTTGCCCTGCAAGGGGATGGCGGCTATCCCTACGCCGTGCCTATCAGTTATGTCCACGCCGACGGCAAACTGTACTTCCACAGTGCTCTGAAAGGCCACAAAGTCGACGCCATCAGAGGCTGCGACAAGGCTTCGTTTTGCGTCATCGAGCAAGACGAGGTGCATGGCGAGGAGTACACGCCCTACTTCCGCAGCGTCATCGCTTTTGGACGAATCCGCATTCTTGAAGACGAAGCGGAGCGGATGGCGGCCGCCCGGCTGCTCGGCGACCGCTATCATCCCCATCATGAGGAAGCGCTCGGCAGGGAACTGGCCAAGAGTTTCAGCCACATGCTGGTCATCTGTCTCGACATCGAGCACATGACAGGCAAGGAAGCCATCGAGTTGGTGAGGATGAAGCGGCAGCGCGCATGA", "fmax": "191480", "accession": "AWEY01000007.1", "fmin": "190961", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Prevotella baroniae F0067", "NCBI_taxonomy_id": "1115809", "NCBI_taxonomy_cvterm_id": "45681"}, "protein_sequence": {"accession": "ERK40265.1", "sequence": "MNRLDNMEFREMRRKRQQLSDAECVGILENATSGTLALQGDGGYPYAVPISYVHADGKLYFHSALKGHKVDAIRGCDKASFCVIEQDEVHGEEYTPYFRSVIAFGRIRILEDEAERMAAARLLGDRYHPHHEEALGRELAKSFSHMLVICLDIEHMTGKEAIELVRMKRQRA"}}}}, "model_name": "nimI", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimI", "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.", "CARD_short_name": "nimI", "ARO_id": "45680", "model_type_id": "40292"}, "5785": {"model_id": "5785", "ARO_accession": "3007112", "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": "nimJ is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8473": {"dna_sequence": {"partial": "0", "sequence": "ATGAATGAATTTAGAGAAATGAGGCGCAAACGCCAACAGCTTTCAGAAGAAGAAAGCATTGCCATATTGCAAAAAGCTACGGCCGGCACTTTAGCATTACTTGGCGACAATGACTATCCCTATGCCGTCCCCATCAGCTATGTCTATGCCGATGGCAGATTATATTTCCATAGTGCACTGAGCGGTCATAAAGTCGATGCCATACGAAAGTGTGACAAGGCTTCGTTCTGTGTCATCGAACAGGATGAAGTGCATCCAGAGAAATACACCACTTTCTTTCGGAGTGTCATCGCATTTGGAAGAATCCATATCATTGAGGATGAAACTGAGAAACTGGAAACAGCCCGGATGCTTGTGAACAGATATAATCCCAACCAAGAGGAAGCCTTGCAGAAAGAGTTGGAGAATGGCCTGTCGCGGATGCTGATGATTCGTTTCGACATAGAGCATCTTACGGGAAAAGAAGCGATAGAATTAGTGAGAAGGCATCAAAAGTAA", "fmax": "19792", "accession": "KJ816753.1", "fmin": "19294", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacteroides fragilis", "NCBI_taxonomy_id": "817", "NCBI_taxonomy_cvterm_id": "35916"}, "protein_sequence": {"accession": "AIM40056.1", "sequence": "MNEFREMRRKRQQLSEEESIAILQKATAGTLALLGDNDYPYAVPISYVYADGRLYFHSALSGHKVDAIRKCDKASFCVIEQDEVHPEKYTTFFRSVIAFGRIHIIEDETEKLETARMLVNRYNPNQEEALQKELENGLSRMLMIRFDIEHLTGKEAIELVRRHQK"}}}}, "model_name": "nimJ", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimJ", "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.", "CARD_short_name": "nimJ", "ARO_id": "45682", "model_type_id": "40292"}, "5786": {"model_id": "5786", "ARO_accession": "3007113", "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": "nimK is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8461": {"dna_sequence": {"partial": "0", "sequence": "ATGTTCAGAGAAATGCGTCGCAAGCGACAACAGTTATCCACAGAAGAGTGCATTGCTATTCTTGAAAAAATGACTTCTGGTGTATTGGCTCTTAATGAAGAAGGCGGCTATCCTTATGCCGTTCCTTTAAGTTACGTATATTCGGATAATAAAATCTACTTTCACAGTGCCATAAAAGGACATAAGATAGAATTACTGGAAAAGAATGAAAACGTCTCTTTTTGCGTAATTTTTCAAGACCATATCGTTCCTGAAGAATTTACCACTTATTTCCAAAGTGTAATTGTATTTGGCAAAGCCCGTATTTTATTGGATGAGAAGGAAAAGATGTCAGCGTTGTGGAAATTAGGAGAAAAATATTCATCAGGTAACGCCGAAGCACTGTCTGCAGAGATAAGTAAAGGGAAGAACCATCTGCTTATTATTGAGATTGCTATCGAGCATATGACAGGAAAAGAATCTATAGAGTTGGTACGGGCCAAGAAATCGATAAAAGAGTCCAAATAG", "fmax": "4375", "accession": "MG827401.1", "fmin": "3868", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Prevotella bivia", "NCBI_taxonomy_id": "28125", "NCBI_taxonomy_cvterm_id": "45684"}, "protein_sequence": {"accession": "AXA20009.1", "sequence": "MFREMRRKRQQLSTEECIAILEKMTSGVLALNEEGGYPYAVPLSYVYSDNKIYFHSAIKGHKIELLEKNENVSFCVIFQDHIVPEEFTTYFQSVIVFGKARILLDEKEKMSALWKLGEKYSSGNAEALSAEISKGKNHLLIIEIAIEHMTGKESIELVRAKKSIKESK"}}}}, "model_name": "nimK", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimK", "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.", "CARD_short_name": "nimK", "ARO_id": "45683", "model_type_id": "40292"}, "5787": {"model_id": "5787", "ARO_accession": "3004655", "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": "nimB is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8463": {"dna_sequence": {"partial": "0", "sequence": "ATGTTTAGAGAAATGCGACGTAAGCGGCAATTATTGCCAACAGAAGAAAGCGTTGCCATCCTTGAAAGGATGACGAACGGAACATTGGCTCTTCATGGGGACGATGGTTACCCGTATGCCGTTCCCATCAGTTATGTATATGCTGATGGCAAAATATATTTCCATAGTGCCATGAAAGGTCATAAAGTGGATGCCATTTTGCAGAATGACAAGGTATCATTCTGCGTGGTAGAACAGGATGACATCAGACCGTCTGAGTTTACCACTTACTTTCGAAGTGTGATAGTCTTTGGCAAAGCCCACATATTGACGGATGAACTCGAAAAACGTGTTGCTTTGGGTTTATTGGCAGACAAGTATTCGTATGGCGAAGCTGGCATGGAGGCTGAAATAGCCAAAGGGTTCAATCATTTGTTAATAGTGAAAATTGCAATTGAGCATATTACAGGCAAGGAAGCCATAGAACTGACCAAAAATAGGAATGACCGTCCTTGA", "fmax": "1288", "accession": "X71443.1", "fmin": "793", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacteroides fragilis", "NCBI_taxonomy_id": "817", "NCBI_taxonomy_cvterm_id": "35916"}, "protein_sequence": {"accession": "CAA50578.1", "sequence": "MFREMRRKRQLLPTEESVAILERMTNGTLALHGDDGYPYAVPISYVYADGKIYFHSAMKGHKVDAILQNDKVSFCVVEQDDIRPSEFTTYFRSVIVFGKAHILTDELEKRVALGLLADKYSYGEAGMEAEIAKGFNHLLIVKIAIEHITGKEAIELTKNRNDRP"}}}}, "model_name": "nimB", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimB", "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.", "CARD_short_name": "nimB", "ARO_id": "42693", "model_type_id": "40292"}, "5780": {"model_id": "5780", "ARO_accession": "3007107", "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": "nimE is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8455": {"dna_sequence": {"partial": "0", "sequence": "ATGTTCAGAGAAATGCGTCGTAAACGACAGTTGTTGCCACAAGAAGAGAGCGTGGCAATTCTTGAAAAAATGACAAACGGGACTTTAGCTCTCCACGGAGATAATGGCTATCCTTATGCCGTTCCTCTCAGTTATTTTTATGCTGATGGCAAAATCTATTTTCATTGCGCCAAGATAGGGCATAAGGTGGACGCTATTATGCAAAACAATAAAGTATCGTTTTGCGTTGTGGAACAAGACAATATTAAACCTGCCGAATTCACGACCTACTTTCGAAGTGTGATAGTCTTTGGAAAGGCCTATATTTTAACCGACGAAACAGAAAAACGTATGGCTATGACTTTGCTGGTGAATAAATATTCTTTCGGTGAGCCAGGTTTGTCTGATGAAATAGCCAAAAGCATCAACCATCTACTGATGGTAAAGATCGATATCGAACACATGACGGGCAAGGAGGCCATCGATTTGGTTAGAGAGAAAGAAAAGTTTTGTACTTCAGAGAAAACCTCTTGA", "fmax": "4839", "accession": "CP036548.1", "fmin": "4326", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacteroides fragilis", "NCBI_taxonomy_id": "817", "NCBI_taxonomy_cvterm_id": "35916"}, "protein_sequence": {"accession": "QCQ47774.1", "sequence": "MFREMRRKRQLLPQEESVAILEKMTNGTLALHGDNGYPYAVPLSYFYADGKIYFHCAKIGHKVDAIMQNNKVSFCVVEQDNIKPAEFTTYFRSVIVFGKAYILTDETEKRMAMTLLVNKYSFGEPGLSDEIAKSINHLLMVKIDIEHMTGKEAIDLVREKEKFCTSEKTS"}}}}, "model_name": "nimE", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimE", "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.", "CARD_short_name": "nimE", "ARO_id": "45675", "model_type_id": "40292"}, "5781": {"model_id": "5781", "ARO_accession": "3007108", "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": "nimF is a nitroimidazole reductase that shares significant identity with other nim genes which are associated with the deactivation of nitroimidazole antibiotics.", "model_sequences": {"sequence": {"8471": {"dna_sequence": {"partial": "1", "sequence": "ATGTTCAGAGAAATGCGGCGTAAGCGGCAGCAACTGTCTGCCGAAGAAAGTATTGCCATCCTTGAACGGATGACGAACGGAGTGCTGGCACTTCATGGGGATGAAGGTTATCCGTATGCCGTCCCTGTCAGTTATGTATATGCGGATGGGAAGATTTATTTCCACAGTGCCATGAAAGGCCATAAGGTGGATGCCATCATGCGGAATGAACGTGTTTCGTTCTGCGTAGTGGAACGGGACGATGTCTGTCCGGGCGAGTTCACCACCTACTTCAGGAGCGTGGTGCTCTTCGGCAAGACCCGTATTTTGACGGAAGAGGCCGAAAAGTTGGCGGCCTTGAGCTTGCTTGCCGACAAATATTCACCGGGAGAACCCGGTAAAGATGCCGAAATCGCCAAAGGGTTTAACCTGCTGATGGTGGAAATTGCAGTCGAGCACATGACAGGCAAGGAA", "fmax": "453", "accession": "AJ515145.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Phocaeicola vulgatus", "NCBI_taxonomy_id": "821", "NCBI_taxonomy_cvterm_id": "39546"}, "protein_sequence": {"accession": "CAD56147.1", "sequence": "MFREMRRKRQQLSAEESIAILERMTNGVLALHGDEGYPYAVPVSYVYADGKIYFHSAMKGHKVDAIMRNERVSFCVVERDDVCPGEFTTYFRSVVLFGKTRILTEEAEKLAALSLLADKYSPGEPGKDAEIAKGFNLLMVEIAVEHMTGKE"}}}}, "model_name": "nimF", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimF", "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.", "CARD_short_name": "nimF", "ARO_id": "45676", "model_type_id": "40292"}, "5782": {"model_id": "5782", "ARO_accession": "3007109", "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": "nimG is a nitroimidazole reductase that shares significant identity with other nim genes which are associated with the deactivation of nitroimidazole antibiotics.", "model_sequences": {"sequence": {"8457": {"dna_sequence": {"partial": "0", "sequence": "ATGTTTAGAGAAATGCGCCGTAAACGGCAATTATTGTCAACAAAAGAAAGCGTTGCCATCCTTGAAAGGATGACGAACGGGACATTGGCTCTTCACGGGGATGACGGTTACCCGTATGCCGTCCCTGTCAGTTATGTATATGCCGATGGCAAAATATACTTCCACAGTGCCATGAAAGGTCACAAAGTGGATGCCATTTCGCGGAATGACAAGATTTCGTTCTGCGTGGTGGAACAGGATGATATCAAGCCTTCTGAGTTTACCACTTACTTCCGGAGCGTGATAGTTTTTGGCAAGGCCCGCATATTGACGGATGAAGGCGAGAAACGTGTTGCTTTGGGTTTATTGGCAGACAAGTATTCGCATGGCGAAGCTGGCATGGAGGCTGAAATAGCTAAGGGATTCAACCATTTGTTGATGGTGGAAATTACAGTTGAGCATATGACAGGCAAGGAGTCCATAGAACTGATTAAAGAAAGAAATGACTGTTCTTGA", "fmax": "3325", "accession": "NFLR01000029.1", "fmin": "2830", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Alistipes sp. An116", "NCBI_taxonomy_id": "1965546", "NCBI_taxonomy_cvterm_id": "45678"}, "protein_sequence": {"accession": "OUQ50894.1", "sequence": "MFREMRRKRQLLSTKESVAILERMTNGTLALHGDDGYPYAVPVSYVYADGKIYFHSAMKGHKVDAISRNDKISFCVVEQDDIKPSEFTTYFRSVIVFGKARILTDEGEKRVALGLLADKYSHGEAGMEAEIAKGFNHLLMVEITVEHMTGKESIELIKERNDCS"}}}}, "model_name": "nimG", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimG", "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.", "CARD_short_name": "nimG", "ARO_id": "45677", "model_type_id": "40292"}, "5783": {"model_id": "5783", "ARO_accession": "3007110", "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": "nimH is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8478": {"dna_sequence": {"partial": "1", "sequence": "TTCAGAGAAATGCGGCGTAAGCGGCAATTGTTGCCAACTGAGGAAAGCATCACTATCCTCGAAAAGATGACGAACGGAACGTTGGCTCTCCATGGGGACAACGGCTATCCGTATGCCGTCCCCGTCAGTTATGTATATGCAGATGGCAAGATATACTTCCACAGTGCCGTGAAAGGGCATAAAGTGGATGCCATCTTGCGAAACAATAAGGTCTCGTTCTGCGTGGTGGAGCAAGATGATGTCAAGCCTGCTGAATTTACCACTTACTTCCGAAGCGTGATAGCTTTCGGCAAAGCACGTATTCTGGCGGATGAGGGAGAAAAACAGCTTGCCTTTCGGCTATTGGCAGACAAGTATTCGCATGGTGAGGTCGGCATGGAAGCTGAAATAGCCAAAGGTTTCAATCATTTGCTGATGGTGGAAATCATGGTTGAGCACATGACAGGCAAGGAA", "fmax": "455", "accession": "FJ969397.1", "fmin": "2", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacteroides fragilis", "NCBI_taxonomy_id": "817", "NCBI_taxonomy_cvterm_id": "35916"}, "protein_sequence": {"accession": "ACR56004.1", "sequence": "FREMRRKRQLLPTEESITILEKMTNGTLALHGDNGYPYAVPVSYVYADGKIYFHSAVKGHKVDAILRNNKVSFCVVEQDDVKPAEFTTYFRSVIAFGKARILADEGEKQLAFRLLADKYSHGEVGMEAEIAKGFNHLLMVEIMVEHMTGKE"}}}}, "model_name": "nimH", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimH", "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.", "CARD_short_name": "nimH", "ARO_id": "45679", "model_type_id": "40292"}, "5788": {"model_id": "5788", "ARO_accession": "3007118", "model_param": {"blastp_bit_score": {"param_value": "400", "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": "crxA is a subclass B1 metallo-betal-lactamase from Bacteroides xylanisolvens that hydrolyzes carbapenems such as imipenem and meropenem.", "model_sequences": {"sequence": {"8464": {"dna_sequence": {"partial": "0", "sequence": "ATGAAATTAAGAGACTTCTTTTTAATTATACTTTTGTTATGTTGGTGTGATATTTATGCGCATACTATCAAGGTTAGTGATAAACTGAACTTGATTCAGCTGAATGAGAACGTTTATATTCATACTGAAAATGACAATAATGGTATTGTTTATATAAATGGTGGTAAGGCTGTAATTGTTTCAACTCCTGAAAACGATGAAGAAACTAACTATTTAATTGATTATATCAGGAATCACTTGAAAAGTGAAATTGTAGCTTGTGTCGTAGATAGATGGCACCCTGATGCAATGGGCGGATTAAATGCCATTAAAAAAGCTAATATACCATCTTATGCCAACAGACTTACTCAGGTAATAGCGAAAGAAAGAATGTTACCTATTCCGGAAAATGGGTTTGATATTACTTTGGAATTGACCGTTGGCAAAAGTAAGTTGATATGTCATTATTTAGGAGAGGCACATACGAAGGATGGGATTGTGGTGTGGCTACCAAACGAGAAGATTCTTTTTGGCGGTAATCAGGTACGTGCAAAAGGTTGGTATGGAAATATTGGTGACGCTAATTTACGGGAATGGTCTAATACAATTGCCCGTGTGAAAGATTTATATGGAGATGCAAAGATCGTGATACCTGGACATGGACATTATGGAGGAAATGAATTGTTGGACTATACAATAAATCTTTATAGACCGACTTTATGGGGTAAAATCTTGAAATGGAATGATGTACAGGTAAAACCGGTATTTAATAATTGTGGGGTAATATTTGAATTAGCAGAGTCTGATTCTATCAATGAGGGAAAAAGATTCTTGAAAAATGCGACAATTTATATTCAGCAGAAGAATAAAAACAGATATTTGAAGATTCAATCTCCAATGATTAGACATGATAATGAGGAGAGCCAGGTACTGTCATCTGATAAAGGTAGGTTGCAGATATATAATATAACAATGAATGAATTGATTGAAGATTTATACTATAAACAATTATATATATCTTTAGAAGAACAATCGGTTGATGCTTTAATCATTTTGAAAGAAGCTATAAGATAA", "fmax": "3623", "accession": "JAGZKL010000021.1", "fmin": "2570", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacteroides sp.", "NCBI_taxonomy_id": "29523", "NCBI_taxonomy_cvterm_id": "45695"}, "protein_sequence": {"accession": "MBS5055441.1", "sequence": "MKLRDFFLIILLLCWCDIYAHTIKVSDKLNLIQLNENVYIHTENDNNGIVYINGGKAVIVSTPENDEETNYLIDYIRNHLKSEIVACVVDRWHPDAMGGLNAIKKANIPSYANRLTQVIAKERMLPIPENGFDITLELTVGKSKLICHYLGEAHTKDGIVVWLPNEKILFGGNQVRAKGWYGNIGDANLREWSNTIARVKDLYGDAKIVIPGHGHYGGNELLDYTINLYRPTLWGKILKWNDVQVKPVFNNCGVIFELAESDSINEGKRFLKNATIYIQQKNKNRYLKIQSPMIRHDNEESQVLSSDKGRLQIYNITMNELIEDLYYKQLYISLEEQSVDALIILKEAIR"}}}}, "model_name": "crxA", "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."}, "36309": {"category_aro_name": "imipenem", "category_aro_cvterm_id": "36309", "category_aro_accession": "3000170", "category_aro_class_name": "Antibiotic", "category_aro_description": "Imipenem is a broad-spectrum antibiotic and is usually taken with cilastatin, which prevents hydrolysis of imipenem by renal dehydropeptidase-I. It is resistant to hydrolysis by most other beta-lactamases. Notable exceptions are the KPC beta-lactamases and Ambler Class B enzymes."}, "45693": {"category_aro_name": "subclass B1 Bacteroides xylanisolvens crx beta-lactamase", "category_aro_cvterm_id": "45693", "category_aro_accession": "3007117", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Subclass B1 Bacteroides xylanisolvens crx beta-lactamases are zinc metallo-beta-lactamases that hydrolyze carbapenems."}, "35990": {"category_aro_name": "meropenem", "category_aro_cvterm_id": "35990", "category_aro_accession": "0000073", "category_aro_class_name": "Antibiotic", "category_aro_description": "Meropenem is an ultra-broad spectrum injectable antibiotic used to treat a wide variety of infections, including meningitis and pneumonia. It is a beta-lactam and belongs to the subgroup of carbapenem, similar to imipenem and ertapenem."}}, "ARO_name": "crxA", "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.", "CARD_short_name": "crxA", "ARO_id": "45694", "model_type_id": "40292"}, "5789": {"model_id": "5789", "ARO_accession": "3007119", "model_param": {"blastp_bit_score": {"param_value": "900", "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": "Tet(O/32/O) is a mosaic tetracycline resistance gene and ribosomal protection protein.", "model_sequences": {"sequence": {"8465": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAATAATTAACTTAGGCATTCTGGCTCACGTTGACGCAGGAAAGACAACATTAACGGAAAGTTTATTGTATACCAGTGGTGCAATTGCAGAACTAGGGAGCGTAGATGAAGGCACAACAAGGACAGATACAATGAATTTGGAGCGTCAAAGGGGAATCACTATCCAGACAGCAGTGACATCTTTTCAGTGGGAGGATGTAAAAGTCAACATTATAGATACGCCAGGCCATATGGATTTTTTAACCGAAGCATACCGCTCTTTATCTGTCCTTGACGGAGCTGTTTTAGTCATTTCGGCAAAAGACGGCGTACAGGCACAGACGCGTATATTATTCCATGCGCTTCAGAAAATGAACATTCCGACAATTATCTTTATAAATAAGATAGACCAAAATGGAATCGACCTACAGCGTGTTTACCAAAGCATTAAAGACAAACTTACCAGTGATATGATTGTCATGCAGGAGGTTTCCCTGTCGCCAAAGATAACCATGACCGATATTTCTGATTTGGACAAATGGGATATGATTATTTCCGGAAGCGATGAACTATTAGAACGATATGTTGCAGAGGATTCTTTGGATATACAGGAATTACAATATGAAAAGTGCAAAAGAACCAGATGCTGCTCTTTGTTTCCTGTTTATCATGGGAGTGCAAAAGACAATTTAGGAACAGAAAAACTGATTGAAGCGATTACAGAAACTTTCATTACAGAAACAGACGATATTCAGTCTGAATTATGTGGATATGTTTTTAAGGTTGAGTATACAGAGCGGAAAAAACGGCTTTCTTATTTACGCCTGTATCATGGGACGCTCCATTTACGGGATACCCTGCTGCTGTCAAAAAAGGAAAAAATAAAGATTACAGAAATGTGTATTCCGTCAAATGGTGAAATCGTCCCGGTTGACCATGCCTGTCCGGGAGAAATTGTTATTTTAGCTGATGATACTTTGAAACTGAACGACATTCTGGGAAATGAAAAACTCCTGCCTCACAAAACACGGATTGATAATCCCATGCCATTACTTCGGACAACGGTAGAGCCGCAAAAGCCGGAGCAAAGGGAAGCCCTGTTAAATGCCCTCACAGAGATTGCTGATACAGACCCTCTTTTGCATTTTGACATTGATACTGTTACACATGAGATTATATTATCTTTTTTGGGAAAAGTACAGTTAGAAGTTATTTGTTCGCTATTAGAAGAAAAATATCATGTGGGCGTGGCTATGAAAGAGCCTTCGGTTATTTATCTGGAAAGACCGCTTAGAAAAGCAGAATATACCATCCACATAGAAGTCCCGCCAAATCCTTTCTGGGCTTCTGTCGGGTTGTCCATAGAGCCGCTCCCTATTGGAAGCGGAGTGCAGTATGAAAGCAGAGTTTCACTTGGATATTTAAATCAATCGTTCCAAAATGCGGTTATGGAGGGGGTTCTTTATGGCTGCGAGCAGGGGCTGTATGGATGGAAAGTGACAGACTGTAAAATCTGTTTTGAATATGGATTGTATTATAGTCCTGTAAGTACCCCCGCAGACTTTCGGCTGCTTTCCCCTATCGTATTGGAGCAGGCTTTAAAAAAAGCAGGGACAGAACTATTAGAGCCATATCTCCACTTTGAAATTTATGCACCGCAGGAATATCTCTCACGGGCGTATCATGATGCTCCAAGGTATTGTGCAGATATTGTAAGTACTCAGATAAAGAATGACGAGGTCATTCTGAAAGGAGAAATCCCTGCTAGATGTATTCAAGAATACAGGAACGATTTAACTTATTTCACAAATGGGCAGGGAGTCTGCTTGACAGAGTTAAAAGGATACCAGCCAGCTATTGGTAAATTTATTTGCCAACCCCGCCGCCCGAATAGCCGTATAGATAAGGTTCGGCATATGTTCCACAAGTTAGCTTAA", "fmax": "2083", "accession": "AJ295238.3", "fmin": "163", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Clostridiaceae bacterium K10", "NCBI_taxonomy_id": "185309", "NCBI_taxonomy_cvterm_id": "36797"}, "protein_sequence": {"accession": "CAC41371.2", "sequence": "MKIINLGILAHVDAGKTTLTESLLYTSGAIAELGSVDEGTTRTDTMNLERQRGITIQTAVTSFQWEDVKVNIIDTPGHMDFLTEAYRSLSVLDGAVLVISAKDGVQAQTRILFHALQKMNIPTIIFINKIDQNGIDLQRVYQSIKDKLTSDMIVMQEVSLSPKITMTDISDLDKWDMIISGSDELLERYVAEDSLDIQELQYEKCKRTRCCSLFPVYHGSAKDNLGTEKLIEAITETFITETDDIQSELCGYVFKVEYTERKKRLSYLRLYHGTLHLRDTLLLSKKEKIKITEMCIPSNGEIVPVDHACPGEIVILADDTLKLNDILGNEKLLPHKTRIDNPMPLLRTTVEPQKPEQREALLNALTEIADTDPLLHFDIDTVTHEIILSFLGKVQLEVICSLLEEKYHVGVAMKEPSVIYLERPLRKAEYTIHIEVPPNPFWASVGLSIEPLPIGSGVQYESRVSLGYLNQSFQNAVMEGVLYGCEQGLYGWKVTDCKICFEYGLYYSPVSTPADFRLLSPIVLEQALKKAGTELLEPYLHFEIYAPQEYLSRAYHDAPRYCADIVSTQIKNDEVILKGEIPARCIQEYRNDLTYFTNGQGVCLTELKGYQPAIGKFICQPRRPNSRIDKVRHMFHKLA"}}}}, "model_name": "tet(O/32/O)", "ARO_category": {"36189": {"category_aro_name": "tetracycline antibiotic", "category_aro_cvterm_id": "36189", "category_aro_accession": "3000050", "category_aro_class_name": "Drug Class", "category_aro_description": "These antibiotics are derived from tetracycline, a polyketide antibiotic that inhibits the 30S subunit of bacterial ribosomes."}, "35921": {"category_aro_name": "tetracycline-resistant ribosomal protection protein", "category_aro_cvterm_id": "35921", "category_aro_accession": "0000002", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A family of proteins known to bind to the 30S ribosomal subunit. This interaction prevents tetracycline and tetracycline derivatives from inhibiting ribosomal function. Thus, these proteins confer elevated resistance to tetracycline derivatives as a ribosomal protection protein."}, "35968": {"category_aro_name": "tetracycline", "category_aro_cvterm_id": "35968", "category_aro_accession": "0000051", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetracycline is a broad-spectrum polyketide antibiotic produced by many Streptomyces. It works by inhibiting action of the prokaryotic 30S ribosome."}, "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": "tet(O/32/O)", "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.", "CARD_short_name": "tet(O/32/O)", "ARO_id": "45696", "model_type_id": "40292"}, "5779": {"model_id": "5779", "ARO_accession": "3007106", "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": "nimD is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8454": {"dna_sequence": {"partial": "0", "sequence": "ATGTTTAGAGAAATGCCGCGTAAGCGGCAATTGTTGCCAACAGAAGAAAGCGTTGCCATTCTTGAACGGATGACAAACGGGACGTTGGCTCTTCATGGGGATGACGGCTATCCGTATGCCGTCCCTGTCAGTTATGTATATGCCGATGGCAAAATTTACTTCCACAGTGCCATGCAAGGGCCAAAAGTGGATGCCATCCTGCGGAATGACAAGGTCTCGTTCTGCGTAGTGGAGCAGGATGAGGTCAAGCCGGCCGAGTTTACCACCTATTTTCGGAGCGTGATAGTCTTTGGCAAGGCCCGCATACTGACCGACGAGAACGAAAAACGAAATGCCTTAAACCTGCTGGCCGACAAGTATTCGCATGGCGAAGCGGGCATGGAGGCTGAAATGGCCAAAGGGTTCAATCATTTGCTGATGATAGAAATCACAGTAGAGCAGATGACCGGAAAAGAAGCCATCGAACTGACAAGGGGAAGAAACGGATGTTCTTGA", "fmax": "2043", "accession": "X76949.1", "fmin": "1548", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacteroides fragilis", "NCBI_taxonomy_id": "817", "NCBI_taxonomy_cvterm_id": "35916"}, "protein_sequence": {"accession": "CAA54273.1", "sequence": "MFREMPRKRQLLPTEESVAILERMTNGTLALHGDDGYPYAVPVSYVYADGKIYFHSAMQGPKVDAILRNDKVSFCVVEQDEVKPAEFTTYFRSVIVFGKARILTDENEKRNALNLLADKYSHGEAGMEAEMAKGFNHLLMIEITVEQMTGKEAIELTRGRNGCS"}}}}, "model_name": "nimD", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimD", "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.", "CARD_short_name": "nimD", "ARO_id": "45674", "model_type_id": "40292"}, "5778": {"model_id": "5778", "ARO_accession": "3007105", "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": "nimC is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8453": {"dna_sequence": {"partial": "0", "sequence": "ATGTTCAGAGCGATGCGTCCGAAGCGGCACGAGTTGCCCACCGATGAGAGCGTAGGCATATTGAAGCGAATGACCAACGGCACGCTGGCCCTGCATGGCGATGGCGATTATCCGTATGCCGTGCCCGTCAGCTATGTGTACAGCGACGGGCGAATCTATTTCCACACGGCCACGCAAGGGCATAAGGTAGATGCCCTGATGCGGAACGACAAGGTATCGTTCTGCGTGGTGGAGCAAGATGACGTGAAATCTGCCGAGTTCACCACTTACTTCCGGAGCGTAATACCGTTCGGCAGGGCACGCATCCTGACGGACGAGACGGAGAACGGTGCCGCATTGCAGCTGCTTGCCGACAAATATTCGTCCGGTATGCCCGGTCTGGAGGCCGTGATAGCCAAAGGCTTCCGTCACCTGCTGATGGTGGAGATAGATATTGAGCACCTGACGGGCAAGGAATCTATCGAGCTGGTCAGGGAAAAGAATGACATGTAA", "fmax": "2130", "accession": "X76948.1", "fmin": "1638", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacteroides thetaiotaomicron", "NCBI_taxonomy_id": "818", "NCBI_taxonomy_cvterm_id": "39568"}, "protein_sequence": {"accession": "CAA54269.1", "sequence": "MFRAMRPKRHELPTDESVGILKRMTNGTLALHGDGDYPYAVPVSYVYSDGRIYFHTATQGHKVDALMRNDKVSFCVVEQDDVKSAEFTTYFRSVIPFGRARILTDETENGAALQLLADKYSSGMPGLEAVIAKGFRHLLMVEIDIEHLTGKESIELVREKNDM"}}}}, "model_name": "nimC", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimC", "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.", "CARD_short_name": "nimC", "ARO_id": "45673", "model_type_id": "40292"}, "5771": {"model_id": "5771", "ARO_accession": "3007089", "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": "KPC-83 is a KPC beta-lactamase. Sequence data were made available through NCBI without publication.", "model_sequences": {"sequence": {"8442": {"dna_sequence": {"partial": "0", "sequence": "ATGTCACTGTATCGCCGTCTAGTTCTGCTGTCTTGTCTCTCATGGCCGCTGGCTGGCTTTTCTGCCACCGCGCTGACCAACCTCGTCGCGGAACCATTCACTAAACTCGAACAGGACTTTGGCGGCTCCATCGGTGTGTACGCGATGGATACCGGCTCAGGCGCAACTGTAAGTTACCGCGCTGAGGAGCGCTTCCCACTGTGCAGCTCATTCAAGGGCTTTCTTGCTGCCGCTGTGCTGGCTCGCAGCCAGCAGCAGGCCGGCTTGCTGGACACACCCATCCGTTACGGCAAAAATGCGCTGGTTCCGTGGTCACCCATCTCGGAAAAATATCTGACAACAGGCATGACGGTGGCGGAGCTGTCCGCGGCCGCCGTGCAATACAGTGATAACGCCGCCGCCAATTTGTTGCTGAAGGAGTTGGGCGGCCCGGCCGGGCTGACGGCCTTCATGCGCTCTATCGGCGATACCACGTTCCGTCTGGACCGCTGGGAGCTGGAGCTGAACTCCGCCATCCCAGGCGATGCGCGCGATACCTCATCGCCGCGCGCCGTGACGGAAAGCTTACAAAAACTGACACTGGGCTCTGCACTGGCTGCGCCGCAGCGGCAGCAGTTTGTTGATTGGCTAAAGGGAAACACGACCGGCAACCACCGCATCCGCGCGGCGGTGCCGGCAGACTGGGCAGTCGGAGACAAAACCGGAACCTGCGGAGTGTATGGCACGGCAAATGACTATGCCGTCGTCTGGCCCACTGGGCGCGCACCTATTGTGTTGGCCGTCTACACCCGGGCGCCTAACAAGGATGACAAGCACAGCGAGGCCGTCATCGCCGCTGCGGCTAGACTCGCGCTCGAGGGATTGGGCGTCAACGGGCAGTAA", "fmax": "882", "accession": "MW581775.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Aeromonas caviae", "NCBI_taxonomy_id": "648", "NCBI_taxonomy_cvterm_id": "36936"}, "protein_sequence": {"accession": "QRM14288.1", "sequence": "MSLYRRLVLLSCLSWPLAGFSATALTNLVAEPFTKLEQDFGGSIGVYAMDTGSGATVSYRAEERFPLCSSFKGFLAAAVLARSQQQAGLLDTPIRYGKNALVPWSPISEKYLTTGMTVAELSAAAVQYSDNAAANLLLKELGGPAGLTAFMRSIGDTTFRLDRWELELNSAIPGDARDTSSPRAVTESLQKLTLGSALAAPQRQQFVDWLKGNTTGNHRIRAAVPADWAVGDKTGTCGVYGTANDYAVVWPTGRAPIVLAVYTRAPNKDDKHSEAVIAAAARLALEGLGVNGQ"}}}}, "model_name": "KPC-83", "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 are a group of antibiotics derived from Penicillium fungi that share a skeleton beta-lactam moiety fused with a thiazolidine ring. This is the most defining feature of penicillins. 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-83", "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.", "CARD_short_name": "KPC-83", "ARO_id": "45653", "model_type_id": "40292"}, "5770": {"model_id": "5770", "ARO_accession": "3007087", "model_param": {"blastp_bit_score": {"param_value": "550", "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": "KPC-90 is a KPC beta-lactamase.", "model_sequences": {"sequence": {"8441": {"dna_sequence": {"partial": "0", "sequence": "ATGTCACTGTATCGCCGTCTAGTTCTGCTGTCTTGTCTCTCATGGCCGCTGGCTGGCTTTTCTGCCACCGCGCTGACCAACCTCGTCGCGGAACCATTCGCTAAACTCGAACAGGACTTTGGCGGCTCCATCGGTGTGTACGCGATGGATACCGGCTCAGGCGCAACTGTAAGTTACCGCGCTGAGGAGCGCTTCCCACTGTGCAGCTCATTCAAGGGCTTTCTTGCTGCCGCTGTGCTGGCTCGCAGCCAGCAGCAGGCCGGCTTGCTGGACACACCCATCCGTTACGGCAAAAATGCGCTGGTTCCGTGGTCACCCATCTCGGAAAAATATCTGACAACAGGCATGACGGTGGCGGAGCTGTCCGCGGCCGCCGTGCAATACAGTGATAACGCCGCCGCCAATTTGTTGCTGAAGGAGTTGGGCGGCCCGGCCGGGCTGACGGCCTTCATGCGCTCTATCGGCGATACCACGTTCCGTCTGGACCGCTGGGAGCTGGAGCTGAACTCCGCCATCCCAGGCGATGCGCGCGATACCTATACCTCATCGCCGCGCGCCGTGACGGAAAGCTTACAAAAACTGACACTGGGCTCTGCACTGGCTGCGCCGCAGCGGCAGCAGTTTGTTGATTGGCTAAAGGGAAACACGACCGGCAACCACCGCATCCGCGCGGCGGTGCCGGCAGACTGGGCAGTCGGAGACAAAACCGGAACCTGCGGAGTGTATGGCACGGCAAATGACTATGCCGTCGTCTGGCCCACTGGGCGCGCACCTATTGTGTTGGCCGTCTACACCCGGGCGCCTAACAAGGATGACAAGCACAGCGAGGCCGTCATCGCCGCTGCGGCTAGACTCGCGCTCGAGGGATTGGGCGTCAACGGGCAGTAA", "fmax": "888", "accession": "MZ570431.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Pseudomonas aeruginosa", "NCBI_taxonomy_id": "287", "NCBI_taxonomy_cvterm_id": "36752"}, "protein_sequence": {"accession": "QXT58056.1", "sequence": "MSLYRRLVLLSCLSWPLAGFSATALTNLVAEPFAKLEQDFGGSIGVYAMDTGSGATVSYRAEERFPLCSSFKGFLAAAVLARSQQQAGLLDTPIRYGKNALVPWSPISEKYLTTGMTVAELSAAAVQYSDNAAANLLLKELGGPAGLTAFMRSIGDTTFRLDRWELELNSAIPGDARDTYTSSPRAVTESLQKLTLGSALAAPQRQQFVDWLKGNTTGNHRIRAAVPADWAVGDKTGTCGVYGTANDYAVVWPTGRAPIVLAVYTRAPNKDDKHSEAVIAAAARLALEGLGVNGQ"}}}}, "model_name": "KPC-90", "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 are a group of antibiotics derived from Penicillium fungi that share a skeleton beta-lactam moiety fused with a thiazolidine ring. This is the most defining feature of penicillins. 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."}, "36727": {"category_aro_name": "avibactam", "category_aro_cvterm_id": "36727", "category_aro_accession": "3000588", "category_aro_class_name": "Adjuvant", "category_aro_description": "Ser beta-lactamase inhibitor targeting class A, class C, and some class D enzymes."}, "35977": {"category_aro_name": "ceftazidime", "category_aro_cvterm_id": "35977", "category_aro_accession": "0000060", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ceftazidime is a third-generation cephalosporin antibiotic. Like other third-generation cephalosporins, it has broad spectrum activity against Gram-positive and Gram-negative bacteria. Unlike most third-generation agents, it is active against Pseudomonas aeruginosa, however it has weaker activity against Gram-positive microorganisms and is not used for such infections."}, "45634": {"category_aro_name": "ceftazidime-avibactam", "category_aro_cvterm_id": "45634", "category_aro_accession": "3007072", "category_aro_class_name": "Antibiotic+Adjuvant", "category_aro_description": "An antibiotic-adjuvant admixture of the beta-lactam antibiotic ceftazidime and the non-beta-lactam beta-lactamase inhibitor avibactam."}, "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-90", "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.", "CARD_short_name": "KPC-90", "ARO_id": "45651", "model_type_id": "40292"}, "5773": {"model_id": "5773", "ARO_accession": "3007098", "model_param": {"blastp_bit_score": {"param_value": "250", "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": "FosM2 is a thiol transferase discovered in human gut microflora that leads to the resistance of fosfomycin.", "model_sequences": {"sequence": {"8446": {"dna_sequence": {"partial": "0", "sequence": "TTGATAAAAGGAATAAACCATTTTCTATTTTCTGTTTCTGATTTGGAGAAATCGATCCAATTTTATCAAGAAGTCTTTGAGGCAAAATTATTGGTCAAAGGGAAAAATACAGCCTATTTTGATTTGAATGGTCTCTGGCTGGCGCTTAATATGGAAAAAGATATCCCTCGGAATGAAATAAAACAGTCCTATACACATATTGCCTTTTCCATAGAAGAAACTGCGTTTGACCGTATGTATGATCAATTAGAGAAATTAGGTGTTAACATCTTAACGGGTCGTCCCAGAGATGAAAAGGATAAAAAGTCCATTTATTTTACCGATCCTGATGGTCATAAGTTTGAATTTCATACCGGCACATTGCAAGATCGATTGAATTATTATAAACAGGAGAAGCCATATATGGATTTTTACATATAA", "fmax": "420", "accession": "BK012112.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Gracilibacillus timonensis", "NCBI_taxonomy_id": "1816696", "NCBI_taxonomy_cvterm_id": "45664"}, "protein_sequence": {"accession": "DAC85640.1", "sequence": "MIKGINHFLFSVSDLEKSIQFYQEVFEAKLLVKGKNTAYFDLNGLWLALNMEKDIPRNEIKQSYTHIAFSIEETAFDRMYDQLEKLGVNILTGRPRDEKDKKSIYFTDPDGHKFEFHTGTLQDRLNYYKQEKPYMDFYI"}}}}, "model_name": "FosM2", "ARO_category": {"35944": {"category_aro_name": "fosfomycin", "category_aro_cvterm_id": "35944", "category_aro_accession": "0000025", "category_aro_class_name": "Drug Class", "category_aro_description": "Fosfomycin (also known as phosphomycin and phosphonomycin) is a broad-spectrum antibiotic produced by certain Streptomyces species. It is effective on gram positive and negative bacteria as it targets the cell wall, an essential feature shared by both bacteria. Its specific target is MurA (MurZ in E.coli), which attaches phosphoenolpyruvate (PEP) to UDP-N-acetylglucosamine, a step of commitment to cell wall synthesis. In the active site of MurA, the active cysteine molecule is alkylated which stops the catalytic reaction."}, "36272": {"category_aro_name": "fosfomycin thiol transferase", "category_aro_cvterm_id": "36272", "category_aro_accession": "3000133", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Catalyzes the addition of a thiol group from a nucleophilic molecule to fosfomycin."}, "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."}}, "ARO_name": "FosM2", "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.", "CARD_short_name": "FosM2", "ARO_id": "45663", "model_type_id": "40292"}, "5772": {"model_id": "5772", "ARO_accession": "3007097", "model_param": {"blastp_bit_score": {"param_value": "250", "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": "FosM1 is a thiol transferase discovered in human gut microflora that leads to the resistance of fosfomycin.", "model_sequences": {"sequence": {"8445": {"dna_sequence": {"partial": "0", "sequence": "GTGAATATAAAAGGCATTAATCACTTCTTATTTTCAGTATCCAATTTAGAGGAATCTATCAAATTTTATCAGAGTGTTTTTGATGCAAAGCTTTTAGTAAAAGGGACAAGCACGGCATATTTTGATTTGAATGGGATATGGCTTGCGCTAAATGAAGAAATAGATATTCCTCGAAATGAAATAAACCAATCCTATACACATATCGCTTTTTCAATAGAGGAAGGTGACTTTGAAAAAGTATATGAAAAATTAAAGCAATTACATGTACATATTCTTACAGGCCGCGAAAGAGATGTAAAAGATAAAAAGTCGATTTATTTTACCGATCCGGATGGGCATAAATTTGAATTCCATACAGGTACATTACAGGATCGATTGGCTTATTATCAACAGGAAAAAAAGCATATGGAGTTTTTTAATTAA", "fmax": "423", "accession": "BK012111.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus massiliigabonensis", "NCBI_taxonomy_id": "1871011", "NCBI_taxonomy_cvterm_id": "45662"}, "protein_sequence": {"accession": "DAC85639.1", "sequence": "MNIKGINHFLFSVSNLEESIKFYQSVFDAKLLVKGTSTAYFDLNGIWLALNEEIDIPRNEINQSYTHIAFSIEEGDFEKVYEKLKQLHVHILTGRERDVKDKKSIYFTDPDGHKFEFHTGTLQDRLAYYQQEKKHMEFFN"}}}}, "model_name": "FosM1", "ARO_category": {"35944": {"category_aro_name": "fosfomycin", "category_aro_cvterm_id": "35944", "category_aro_accession": "0000025", "category_aro_class_name": "Drug Class", "category_aro_description": "Fosfomycin (also known as phosphomycin and phosphonomycin) is a broad-spectrum antibiotic produced by certain Streptomyces species. It is effective on gram positive and negative bacteria as it targets the cell wall, an essential feature shared by both bacteria. Its specific target is MurA (MurZ in E.coli), which attaches phosphoenolpyruvate (PEP) to UDP-N-acetylglucosamine, a step of commitment to cell wall synthesis. In the active site of MurA, the active cysteine molecule is alkylated which stops the catalytic reaction."}, "36272": {"category_aro_name": "fosfomycin thiol transferase", "category_aro_cvterm_id": "36272", "category_aro_accession": "3000133", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Catalyzes the addition of a thiol group from a nucleophilic molecule to fosfomycin."}, "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."}}, "ARO_name": "FosM1", "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.", "CARD_short_name": "FosM1", "ARO_id": "45661", "model_type_id": "40292"}, "5775": {"model_id": "5775", "ARO_accession": "3007101", "model_param": {"blastp_bit_score": {"param_value": "350", "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": "Bacillus cereus beta-lactamase III is a class A beta-lactamase that breaks down a number of penicillins and cephalosporins in Bacillus cereus.", "model_sequences": {"sequence": {"8450": {"dna_sequence": {"partial": "0", "sequence": "ATGTTCGTTTTAAACAAGTTCTTTACCAATTCACATTACAAAAAAATTGTACCTGTCGTATTACTTTCATGCGCGACACTGATAGGGTGTTCTAATAGTAATACGCAATCAGAATCAACTAAACAAACAAATCAAACCAATCAAGTTAAGCAAGAAAATATAGGTAATCATGCTTTTGCTAAACTTGAAAAAGAATATAACGCTAAACTTGGTATTTACGCACTGGACACAAGTACGAATCAGACTGTTGCTTACCATGCAGATGATCGTTTTGCATTTGCCTCTACATCTAAATCATTAGCAGTGGGAGCTCTTTTACGTCAGAATTCAATAGAAGCTCTTGATGAAAGAATTACGTATACACGTGAAGACCTATCTAATTATAATCCAATTACTGAAATGCATGTGGATACAGGAATGACGTTAAAAGAACTTGCAGATGCTTCTGTTCGATATAGTGACAGTACGGCACATAATTTAATTCTTAAAAAGTTAGGTGGTCCATCCGCATTTGAAAAAATCTTGAGGAAAATGGGTGATACTGTTACTAACTCCGAGCGATTTGAACCTGAATTAAATGAAGTAAATCCAGGAGAAACACATGATACGAGTACACCAAAAGCAATCGCTAAGACGCTTCAATCTTTTACATTAGGAACTGTACTACCATCTGAGAAACGTGAACTGTTAGTAGATTGGATGAAGAGAAATACGACTGGGAATAAATTAATTCGTGCGGGTGTACCAAAAGGATGGGAAGTAGCTGATAAAACAGGTGCAGGATCTTATGGAACAAGGAATGATATCGCAATTATTTGGCCACCAAATAAAAAGCCGATTGTTCTTTCCATCCTTTCTAATCATGATAAAGAAGATGCAGAATACGATGATACACTTATTGCAGACGCTACGAAAATCGTGTTAGAAACTCTAAAAGTTACGAATAAATAA", "fmax": "24954", "accession": "AHFI01000047.1", "fmin": "24003", "strand": "-"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus cereus VD166", "NCBI_taxonomy_id": "1053240", "NCBI_taxonomy_cvterm_id": "45669"}, "protein_sequence": {"accession": "EJR72097.1", "sequence": "MFVLNKFFTNSHYKKIVPVVLLSCATLIGCSNSNTQSESTKQTNQTNQVKQENIGNHAFAKLEKEYNAKLGIYALDTSTNQTVAYHADDRFAFASTSKSLAVGALLRQNSIEALDERITYTREDLSNYNPITEMHVDTGMTLKELADASVRYSDSTAHNLILKKLGGPSAFEKILRKMGDTVTNSERFEPELNEVNPGETHDTSTPKAIAKTLQSFTLGTVLPSEKRELLVDWMKRNTTGNKLIRAGVPKGWEVADKTGAGSYGTRNDIAIIWPPNKKPIVLSILSNHDKEDAEYDDTLIADATKIVLETLKVTNK"}}}}, "model_name": "BcIII", "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."}, "45667": {"category_aro_name": "class A Bacillus cereus Bc beta-lactamase", "category_aro_cvterm_id": "45667", "category_aro_accession": "3007100", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Class A Bacillus cereus Bc beta-lactamases are enzymes that break down beta-lactam antibiotics, particularly penicillins."}, "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."}, "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."}}, "ARO_name": "BcIII", "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.", "CARD_short_name": "BcIII", "ARO_id": "45668", "model_type_id": "40292"}, "5774": {"model_id": "5774", "ARO_accession": "3007099", "model_param": {"blastp_bit_score": {"param_value": "250", "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": "FosM3 is a thiol transferase discovered in human gut microflora that leads to the resistance of fosfomycin.", "model_sequences": {"sequence": {"8447": {"dna_sequence": {"partial": "0", "sequence": "ATGGTGAAGATAAAAGGTCTAAATCATTTATTATTTTCTGTGTCTAATTTAGAGGAATCAATAGAATTTTATAGAAATGTGTTTGATGCCAAGCTGTTAGTTAAAGGGAGAAGCACGGCCTATTTCGACGTAAATGGTATATGGCTTGCCCTTAATGAGGAAAAAGATATTCCTCGTAATGAAATTAACCAGTCATACACACATATAGCCTTTTCAATAGAAGAAACAGAGTTTGATGGAATATATCACAAGCTAAAAGAATTGAATGTAAACATCTTATCAGGTCGTCCAAGAGACCAGAAAGATAAAAAGTCTATTTACTTTACAGACCTGGATGGTCATAAGTTTGAGTTTCACACAGGTACTTTACAAGACAGGCTGGATTATTACAAAGAGGAAAAAAAACATATGGAGTTTTACAATGAGTAA", "fmax": "429", "accession": "BK012113.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Bacillus phocaeensis", "NCBI_taxonomy_id": "1720202", "NCBI_taxonomy_cvterm_id": "45666"}, "protein_sequence": {"accession": "DAC85641.1", "sequence": "MVKIKGLNHLLFSVSNLEESIEFYRNVFDAKLLVKGRSTAYFDVNGIWLALNEEKDIPRNEINQSYTHIAFSIEETEFDGIYHKLKELNVNILSGRPRDQKDKKSIYFTDLDGHKFEFHTGTLQDRLDYYKEEKKHMEFYNE"}}}}, "model_name": "FosM3", "ARO_category": {"35944": {"category_aro_name": "fosfomycin", "category_aro_cvterm_id": "35944", "category_aro_accession": "0000025", "category_aro_class_name": "Drug Class", "category_aro_description": "Fosfomycin (also known as phosphomycin and phosphonomycin) is a broad-spectrum antibiotic produced by certain Streptomyces species. It is effective on gram positive and negative bacteria as it targets the cell wall, an essential feature shared by both bacteria. Its specific target is MurA (MurZ in E.coli), which attaches phosphoenolpyruvate (PEP) to UDP-N-acetylglucosamine, a step of commitment to cell wall synthesis. In the active site of MurA, the active cysteine molecule is alkylated which stops the catalytic reaction."}, "36272": {"category_aro_name": "fosfomycin thiol transferase", "category_aro_cvterm_id": "36272", "category_aro_accession": "3000133", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Catalyzes the addition of a thiol group from a nucleophilic molecule to fosfomycin."}, "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."}}, "ARO_name": "FosM3", "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.", "CARD_short_name": "FosM3", "ARO_id": "45665", "model_type_id": "40292"}, "5777": {"model_id": "5777", "ARO_accession": "3007104", "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": "nimA is a nitroimidazole reductase mainly found in Bacteroides fragilis that is associated with the deactivation of nitroimidazole antibiotics such as metronidazole. Minimum inhibitory concentrations observed in isolates vary greatly depending on species, strain, and nitroimidazole treatment.", "model_sequences": {"sequence": {"8452": {"dna_sequence": {"partial": "0", "sequence": "ATGTTCAGAGAAATGCGGCGCAAACGCCAGTTGTTGCCGCCCGAAGAAAGCTTGGCGATACTGGAGCGCATGACCGGCGGTACGCTTGCCCTTCATGGCGACAACGGATATCCGTATGCCGTCCCCGTGAGCTATGTGTATGCCGACGGGAAGATTTATTTTCACGGTGCCGTGCAAGGGCATAAGATGGATGCCATCAGGCAGCATCCCGAAGTCTCGTTTTGTGTGGTGGAGCAAGACCGGATAGTTCCTGCCGAGTTTACAACCTATTTCCGGAGTGTCATTGTCTTCGGTAAAGCCCGTATCCTGACCGATGAGGTCGAGAAGCGTGCCGCTCTGCTTCGGCTGGCAGAGAAGTATTCGTCCGGCGAGTCGGGTATGCAAGACGAGATAGACAAGGGATTCGACCATCTGGTAATGGTGGAGATAACCGTCGAGCACATGACAGGCAAGGAGGCTATACAGCTGGTGCGCAGAAAGGGAAATAACAGGTGGGACGCTTTTCCGTCAAAGGACGTTTTTATCAGATAG", "fmax": "2144", "accession": "X71444.1", "fmin": "1613", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Phocaeicola vulgatus", "NCBI_taxonomy_id": "821", "NCBI_taxonomy_cvterm_id": "39546"}, "protein_sequence": {"accession": "CAA50581.1", "sequence": "MFREMRRKRQLLPPEESLAILERMTGGTLALHGDNGYPYAVPVSYVYADGKIYFHGAVQGHKMDAIRQHPEVSFCVVEQDRIVPAEFTTYFRSVIVFGKARILTDEVEKRAALLRLAEKYSSGESGMQDEIDKGFDHLVMVEITVEHMTGKEAIQLVRRKGNNRWDAFPSKDVFIR"}}}}, "model_name": "nimA", "ARO_category": {"41239": {"category_aro_name": "nitroimidazole antibiotic", "category_aro_cvterm_id": "41239", "category_aro_accession": "3004115", "category_aro_class_name": "Drug Class", "category_aro_description": "Nitroimidazoles are a group of drugs that have both antiprotozoal and antibacterial activity, classified with respect to the location of the nitro functional group."}, "37033": {"category_aro_name": "metronidazole", "category_aro_cvterm_id": "37033", "category_aro_accession": "3000689", "category_aro_class_name": "Antibiotic", "category_aro_description": "Metronidazole is a nitroimidazole that is active against anaerobic bacteria and protozoa. It is not effective against aerobic bacteria. Nitroimidazoles act by oxidizing DNA causing strand breaks and cell death."}, "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."}, "45671": {"category_aro_name": "nitroimidazole reductase", "category_aro_cvterm_id": "45671", "category_aro_accession": "3007103", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "Nitroimidazole reductases are a group of enzymes that deactivate nitroimidazole antibiotics by reducing their nitro functional group to an amino group. These enzymes are associated with resistance to nitroimidazole derivatives in Bacteroides fragilis but have also been reported in a variety of anaerobic Gram-negative and Gram-positive genera. The minimum inhibitory concentrations for these enzymes vary greatly depending on species, strain, and precise nitroimidazole treatment used."}}, "ARO_name": "nimA", "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.", "CARD_short_name": "nimA", "ARO_id": "45672", "model_type_id": "40292"}, "5776": {"model_id": "5776", "ARO_accession": "3007102", "model_param": {"blastp_bit_score": {"param_value": "550", "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": "KPC-93 is a KPC beta-lactamase.", "model_sequences": {"sequence": {"8451": {"dna_sequence": {"partial": "0", "sequence": "ATGTCACTGTATCGCCGTCTAGTTCTGCTGTCTTGTCTCTCATGGCCGCTGGCTGGCTTTTCTGCCACCGCGCTGACCAACCTCGTCGCGGAACCATTCGCTAAACTCGAACAGGACTTTGGCGGCTCCATCGGTGTGTACGCGATGGATACCGGCTCAGGCGCAACTGTAAGTTACCGCGCTGAGGAGCGCTTCCCACTGTGCAGCTCATTCAAGGGCTTTCTTGCTGCCGCTGTGCTGGCTCGCAGCCAGCAGCAGGCCGGCTTGCTGGACACACCCATCCGTTACGGCAAAAATGCGCTGGTTCCGTGGTCACCCATCTCGGAAAAATATCTGACAACAGGCATGACGGTGGCGGAGCTGTCCGCGGCCGCCGTGCAATACAGTGATAACGCCGCCGCCAATTTGTTGCTGAAGGAGTTGGGCGGCCCGGCCGGGCTGACGGCCTTCATGCGCTCTATCGGCGATACCACGTTCCGTCTGGACCGCTGGGAGCTGGAGCTGAACTCCGCCATCCCAGGCGATGCGCGCGATACCTCATCGCCGCGCGCCGTGACGGAAAGCTTACAAAAACTGACACTGGGCTCTGCACTGGCTGCGCCGCAGCGGCAGCAGTTTGTTGATTGGCTAAAGGGAAACACGACCGGCAACCACCGCATCCGCGCGGCGGTGCCGGCAGACTGGGCAGTCGGAGACAAAACCGGAACCTGCGGAGTGTATGGCACGGCAAATGACTATGCCGTCGTCTGGCCCACTGGGCGCGCACCTATTGTGTTGGCCGTCTACACCCGGGCGCCTAACAACCGGGCGCCTAACAAGGATGACAAGCACAGCGAGGCCGTCATCGCCGCTGCGGCTAGACTCGCGCTCGAGGGATTGGGCGTCAACGGGCAGTAA", "fmax": "897", "accession": "MZ569034.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Klebsiella pneumoniae", "NCBI_taxonomy_id": "573", "NCBI_taxonomy_cvterm_id": "35915"}, "protein_sequence": {"accession": "QYZ75849.1", "sequence": "MSLYRRLVLLSCLSWPLAGFSATALTNLVAEPFAKLEQDFGGSIGVYAMDTGSGATVSYRAEERFPLCSSFKGFLAAAVLARSQQQAGLLDTPIRYGKNALVPWSPISEKYLTTGMTVAELSAAAVQYSDNAAANLLLKELGGPAGLTAFMRSIGDTTFRLDRWELELNSAIPGDARDTSSPRAVTESLQKLTLGSALAAPQRQQFVDWLKGNTTGNHRIRAAVPADWAVGDKTGTCGVYGTANDYAVVWPTGRAPIVLAVYTRAPNNRAPNKDDKHSEAVIAAAARLALEGLGVNGQ"}}}}, "model_name": "KPC-93", "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 are a group of antibiotics derived from Penicillium fungi that share a skeleton beta-lactam moiety fused with a thiazolidine ring. This is the most defining feature of penicillins. 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."}, "36727": {"category_aro_name": "avibactam", "category_aro_cvterm_id": "36727", "category_aro_accession": "3000588", "category_aro_class_name": "Adjuvant", "category_aro_description": "Ser beta-lactamase inhibitor targeting class A, class C, and some class D enzymes."}, "35977": {"category_aro_name": "ceftazidime", "category_aro_cvterm_id": "35977", "category_aro_accession": "0000060", "category_aro_class_name": "Antibiotic", "category_aro_description": "Ceftazidime is a third-generation cephalosporin antibiotic. Like other third-generation cephalosporins, it has broad spectrum activity against Gram-positive and Gram-negative bacteria. Unlike most third-generation agents, it is active against Pseudomonas aeruginosa, however it has weaker activity against Gram-positive microorganisms and is not used for such infections."}, "45634": {"category_aro_name": "ceftazidime-avibactam", "category_aro_cvterm_id": "45634", "category_aro_accession": "3007072", "category_aro_class_name": "Antibiotic+Adjuvant", "category_aro_description": "An antibiotic-adjuvant admixture of the beta-lactam antibiotic ceftazidime and the non-beta-lactam beta-lactamase inhibitor avibactam."}, "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-93", "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.", "CARD_short_name": "KPC-93", "ARO_id": "45670", "model_type_id": "40292"}, "5797": {"model_id": "5797", "ARO_accession": "3007127", "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": "Streptomyces lividans otr(A) is an oxytetracycline resistance ribosomal protection protein found in Streptomyces lividans.", "model_sequences": {"sequence": {"8476": {"dna_sequence": {"partial": "0", "sequence": "ATGCGCACCCTGAACATCGGCATTCTGGCCCACGTCGACGCGGGTAAGACCAGCCTGACCGAACGGCTCCTGTTCGACCACGGCGCCGTCGACCGGCTCGGCAGCGTCGACGCCGGCGACACCCGTACGGTCGACGGCGGTATCGAGCGCCGCCGCGGCATCACCATCCGCTCCGCCGTCGCCGCCTTCACCGTCGGCGACACGCGCGTCAACCTGATCGACACCCCGGGACACTCCGACTTCGTCGCGGAGGTCGAGCGGGCCCTGGAAGTGCTCGACGGGGCGGTGCTGCTGCTGTCCGCCGTCGAGGGCGTCCAGGCGCGGACCCGCGTCCTGATGCGCGCGCTGCGGCGGCTGCGGCTGCCCACGATCGTGTTCGTCAACAAGATCGACCGGGCCGGCGCGCGCACCGACGGCCTCCTCGGTGACGTCCGGCGCCTGCTGACGCCGCACGTCGCGCCGCTGACCGAGGTGGCGGACGCCGGTACCCCGCGCGCCCGGGTCACCCGCCGCCCGCCGGACGGGCGGACCGCGGAGGCCCTCGCCGAGGTCGACACGGAGGTCCTGGCCGCGCTGGTCGACGGCCCCGAGCCGACCGGGGAGGACGTGGCCCGCGCCCTCGCCGCCCGTACCGCCGACGGCTCGTTCCACCCGCTGTACCACGGCTCCGCGCTCGGCGGACAGGGCGTCGCGGAGCTGGTCGAGGGCCTGCTCGGCCTGATCCCGGCCGCCACGCCGGGCACGTCCGGCGGCACGTCCGGCGGCACGGAACCGCGCGGCACGGTCTTCGCCGTGCGCCCCGGACCCGCCGGCGAGCGCACCGCGTACCTCAGGCTGTACGGCGGCGAGGTGCACCCGCGCCGGCGGCTCACCTTCCTGCGGCGCGAGTCCGACGGGCGGACCACCGAGGTCTCCGGCCGGGTGACCCGCCTCGACGTCGTCGGCGGCGACGCCACGCTCACCGCCGGGAACATCGCCGCGCTCACCGTTCCCGGGGGCCTGCGCGTCGGCGACCGGCTCGGCGGACCGACCGACCGTGCACCGCAGTTCGCGCCACCGACCCTGCAGACGCTGGTCCGGGCCCGGCACCCGGAGCAGGCGGCGCCGCTGCGCTCCGCCCTGCTGGCGCTGGCCGACCAGGACCCGCTGCTGCACGCCCGACCGGCGGCGTCCGGCGCCACCGCCCTGCTCCTGTACGGCGAGGTCCAGATGGAGGTGCTCGCGGCGACACTGGCCGAGGACTTCGGGATCGAGGCGGAGTTCACGCCGGGCCGCGTCCGGTTCCTGGAGCGTCCGGCGGGCACCGACGAGGCCGCGGAGGAGATGCCGTGGCTCGACCGCACCCGGTACTTCGCGACGATCGGGCTGCGCGTCGAACCGGGTCCGCGCGGCTCCGGCGGGGCCTTCGGGTACGAGACGGAGCTCGGCGCGCTCCCCCGGGCCTTCCACCAGGCCGTCGAGGAGACCGTCCACGACACGCTGCGGACCGGGCTCACCGGTGCGGCGGTCACCGACTACCGGGTCACGCTGATCCGCTCCGGCTTCAGCTCGCCGCTCAGCACGGCCGCCGACTTCCGCGGGCTGACACCGCTCGTGCTGCGCCGTGCCCTCGCCCGCGCGGGGACCGTGCTCCACGAGCCGTACCAGGCCTTCGAGGCGGAGGTCCCGGCGGACACGCTGGCCGCCGTGACGGCCCTGCTGGCCTCGCTGGGCGCGGACTTCACCGGAACGACGGGGGGCGACCCGGCCTGGATCGTCACCGGCGAGCTGCCGGCCCGGCGGGTGCGGGAGGCCGAGCTGCGGCTGCCGGGGCTGACGCACGGGGAGGCGGTCTGGTCCTCCCGCCCTTGCGAGGACCGACCGCTGAAGGCCGGAAACTCTGGGCCTGGCACGGGAGTTGGCGGGCATTCGGGTGAGTAG", "fmax": "2262", "accession": "M74049.1", "fmin": "342", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Streptomyces lividans 1326", "NCBI_taxonomy_id": "1200984", "NCBI_taxonomy_cvterm_id": "39551"}, "protein_sequence": {"accession": "AAA26830.1", "sequence": "MRTLNIGILAHVDAGKTSLTERLLFDHGAVDRLGSVDAGDTRTVDGGIERRRGITIRSAVAAFTVGDTRVNLIDTPGHSDFVAEVERALEVLDGAVLLLSAVEGVQARTRVLMRALRRLRLPTIVFVNKIDRAGARTDGLLGDVRRLLTPHVAPLTEVADAGTPRARVTRRPPDGRTAEALAEVDTEVLAALVDGPEPTGEDVARALAARTADGSFHPLYHGSALGGQGVAELVEGLLGLIPAATPGTSGGTSGGTEPRGTVFAVRPGPAGERTAYLRLYGGEVHPRRRLTFLRRESDGRTTEVSGRVTRLDVVGGDATLTAGNIAALTVPGGLRVGDRLGGPTDRAPQFAPPTLQTLVRARHPEQAAPLRSALLALADQDPLLHARPAASGATALLLYGEVQMEVLAATLAEDFGIEAEFTPGRVRFLERPAGTDEAAEEMPWLDRTRYFATIGLRVEPGPRGSGGAFGYETELGALPRAFHQAVEETVHDTLRTGLTGAAVTDYRVTLIRSGFSSPLSTAADFRGLTPLVLRRALARAGTVLHEPYQAFEAEVPADTLAAVTALLASLGADFTGTTGGDPAWIVTGELPARRVREAELRLPGLTHGEAVWSSRPCEDRPLKAGNSGPGTGVGGHSGE"}}}}, "model_name": "Streptomyces lividans otr(A)", "ARO_category": {"36189": {"category_aro_name": "tetracycline antibiotic", "category_aro_cvterm_id": "36189", "category_aro_accession": "3000050", "category_aro_class_name": "Drug Class", "category_aro_description": "These antibiotics are derived from tetracycline, a polyketide antibiotic that inhibits the 30S subunit of bacterial ribosomes."}, "35921": {"category_aro_name": "tetracycline-resistant ribosomal protection protein", "category_aro_cvterm_id": "35921", "category_aro_accession": "0000002", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A family of proteins known to bind to the 30S ribosomal subunit. This interaction prevents tetracycline and tetracycline derivatives from inhibiting ribosomal function. Thus, these proteins confer elevated resistance to tetracycline derivatives as a ribosomal protection protein."}, "35968": {"category_aro_name": "tetracycline", "category_aro_cvterm_id": "35968", "category_aro_accession": "0000051", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetracycline is a broad-spectrum polyketide antibiotic produced by many Streptomyces. It works by inhibiting action of the prokaryotic 30S ribosome."}, "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": "Streptomyces lividans otr(A)", "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.", "CARD_short_name": "otr(A)S.liv", "ARO_id": "45707", "model_type_id": "40292"}, "5796": {"model_id": "5796", "ARO_accession": "3007126", "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": "ROB-12 is a class A beta-lactamase from the blaROB AMR gene family.", "model_sequences": {"sequence": {"8475": {"dna_sequence": {"partial": "0", "sequence": "ATGTTAAATAAGTTAAAAATCGGCACATTATTATTGCTGACATTATTATTGCTGACATTAACGGCTTGTTCGCCCAATTCTGTTCATTCGGTAACGTCTAATCCGCAGCCTGCTAGTGCGCCTGTGCAACAATCAGCCACACAAGCCACCTTTCAACAGACTTTGGCGAATTTGGAACAGCAGTATCAAGCCCGAATTGGCGTTTATGTATGGGATACAGAAACGGGACATTCTTTGTCTTATCGTGCAGATGAACGCTTTGCTTATGCGTCCACTTTCAAGGCGTTGTTGGCTGGGGCGGTGTTGCAATCGCTGCCTGAAAAAGATTTAAATCGTACCATTTCATATAGCCAAAAAGATTTGGTTAGTTATTCTCCCGAAACCCAAAAATACGTTGGCAAAGGCATGACGATTGCCCAATTATGTGAAGCAGCCGTGCGGTTTAGCGACAACAGCGCGACCAATTTGCTGCTCAAAGAATTGGGTGGCGTGGAACAATATCAACGTATTTTGCGACAATTAGGCGATAACGTAACCCATGCCAATCGGCTAGAACCCGATTTAAATCAAGCCAAACCCAACGATATTCGTGATACGAGTACACCCAAACAAATGGCGATGAATTTAAATGCGTATTTATTGGGCAACACATTAACCGAATCGCAAAAAACGATTTTGTGGAATTGGTTGGACAATAACGCAACAGGCAATCCATTGATTCGCGCTGCTACGCCAACATCGTGGAAAGTGTACGATAAAAGCGGGGCGGGTAAATATGGTGTACGCAATGATATTGCGGTGGTTCGCATACCAAATCGCAAACCGATTGTGATGGCAATCATGAGTACGCAATTTACCGAAGAAGCCAAATTCAACAATAAATTAGTAGAAGATGCAGCAAAGCAAGTATTTCATACTTTACAGCTCAACTAA", "fmax": "933", "accession": "MW735842.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Pasteurella multocida", "NCBI_taxonomy_id": "747", "NCBI_taxonomy_cvterm_id": "36867"}, "protein_sequence": {"accession": "QSX93374.1", "sequence": "MLNKLKIGTLLLLTLLLLTLTACSPNSVHSVTSNPQPASAPVQQSATQATFQQTLANLEQQYQARIGVYVWDTETGHSLSYRADERFAYASTFKALLAGAVLQSLPEKDLNRTISYSQKDLVSYSPETQKYVGKGMTIAQLCEAAVRFSDNSATNLLLKELGGVEQYQRILRQLGDNVTHANRLEPDLNQAKPNDIRDTSTPKQMAMNLNAYLLGNTLTESQKTILWNWLDNNATGNPLIRAATPTSWKVYDKSGAGKYGVRNDIAVVRIPNRKPIVMAIMSTQFTEEAKFNNKLVEDAAKQVFHTLQLN"}}}}, "model_name": "ROB-12", "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 are a group of antibiotics derived from Penicillium fungi that share a skeleton beta-lactam moiety fused with a thiazolidine ring. This is the most defining feature of penicillins. 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."}, "39428": {"category_aro_name": "ROB beta-lactamase", "category_aro_cvterm_id": "39428", "category_aro_accession": "3002994", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "ROB beta-lactamases are a class A beta-lactamases."}}, "ARO_name": "ROB-12", "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.", "CARD_short_name": "ROB-12", "ARO_id": "45706", "model_type_id": "40292"}, "5795": {"model_id": "5795", "ARO_accession": "3007125", "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": "ROB-11 is a class A beta-lactamase from the blaROB AMR gene family.", "model_sequences": {"sequence": {"8477": {"dna_sequence": {"partial": "0", "sequence": "ATGTTAAATAAGTTAAAAATCGGCACATTATTATTGCTGACATTAACGGCTTGTTCGCCCAATTCTGTTCATTCGGTAACGTCTAATCCGCAGCCTGCTAGTGCGCCTGTGCAACAATCAGCCACACAAGCCACCTTTCAACAGACTTTGGCGAATTTGGAACAGCAGTATCAAGCCCGAATTGGCGTTTATGTATGGGATACAGAAACGGGACATTCTTTGTCTTATCGTGCAGATGAACGCTTTGCTTATGCGTCCACTTTCAAGGCGTTGTTGGCTGGGGCGGTGTTGCAATCGCTGCCTGAAAAAGATTTAAATCGTACCATTTCATATAGCCAAAAAGATTTGGTTAGTTATTCTCCCGAAACCCAAAAATACGTTGGCAAAGGCATGACGATTGCCCAATTATGTGAAGCAGCCGTGCGGTTTAGCGACAACAGCGCGACCAATTTGCTGCTCAAAGAATTGGGTGGCGTGGAACAATATCAACGTATTTTGCGACAATTAGGCGATAACGTAACCCATGCCAATCGGCTAGAACCCGATTTAAATCAAGCCAAACCCAACGATATTCGTGATACGAGTACACCCAAACAAATGGCGATGAATTTAAATGCGTATTTATTGGGCAACACATTAACCGAATCGCAAAAAACGATTTTGTGGAATTGGTTGGACAATAACGCAACAGGCAATCCATTGATTCGCGCTGCTACGCCAACATCGTGGAAAGTGTACGATAAAAGCGGGGCGGGTAAATATGGTGTACGCAATGATATTGCGGTGGTTCGCATACCAAATCGCAAACCGATTGTGATGGCAATCATGAGTACGCAATTTACCGAAGAAGCCAAATTCAACAATAAATTAGTAGAAGATGCAGCAAAGCAAGTATTTCATACTTTACAGCTCAACTAA", "fmax": "918", "accession": "MW735840.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Pasteurella multocida", "NCBI_taxonomy_id": "747", "NCBI_taxonomy_cvterm_id": "36867"}, "protein_sequence": {"accession": "QSX93372.1", "sequence": "MLNKLKIGTLLLLTLTACSPNSVHSVTSNPQPASAPVQQSATQATFQQTLANLEQQYQARIGVYVWDTETGHSLSYRADERFAYASTFKALLAGAVLQSLPEKDLNRTISYSQKDLVSYSPETQKYVGKGMTIAQLCEAAVRFSDNSATNLLLKELGGVEQYQRILRQLGDNVTHANRLEPDLNQAKPNDIRDTSTPKQMAMNLNAYLLGNTLTESQKTILWNWLDNNATGNPLIRAATPTSWKVYDKSGAGKYGVRNDIAVVRIPNRKPIVMAIMSTQFTEEAKFNNKLVEDAAKQVFHTLQLN"}}}}, "model_name": "ROB-11", "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 are a group of antibiotics derived from Penicillium fungi that share a skeleton beta-lactam moiety fused with a thiazolidine ring. This is the most defining feature of penicillins. 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."}, "39428": {"category_aro_name": "ROB beta-lactamase", "category_aro_cvterm_id": "39428", "category_aro_accession": "3002994", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "ROB beta-lactamases are a class A beta-lactamases."}}, "ARO_name": "ROB-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.", "CARD_short_name": "ROB-11", "ARO_id": "45705", "model_type_id": "40292"}, "5794": {"model_id": "5794", "ARO_accession": "3007124", "model_param": {"blastp_bit_score": {"param_value": "875", "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": "Tet(W/32/O) is a mosaic tetracycline resistance gene and ribosomal protection protein.", "model_sequences": {"sequence": {"8470": {"dna_sequence": {"partial": "0", "sequence": "ATGAACATTATCAATATCGGGATTCTTGCCCATGTAGATGCGGGCAAGACGACACTGACAGAAAGCCTGCTGTATGCCAGCGGAACCATTTCAGAGCCGGGGAGCGTCGAAAAAGGGACAACGAGAACGGACACTATGTTTTTGGAGCGGCAGCGTGGAATTACCATTCAAACGGCAGTCACTTCTTTCCAGTGGCACAGTTGTAAAGTCAACATTGTGGATACTCCCGGCCACATGGATTTCTTGGCAGAGGTATACCGCTCTCTGGCCGTTTTGGACGGGGCCATCTTGGTGCTCTCCGCTAGAGATGGCGTACAGGCCCAGACCCGAGTTCTGTTCCATGCCCTACGGAAATTGAACATCCCCACCATTATCTTTATCAACAAGATCGACCAGGTTGACATTGATTTGGAGGGCGTATATCAGTCTGTTCGGGATAAGCTCTCCGCCGATATTATCATCAAGCAGACGGTATCGCTGTCCCCGGAAATAGTTCTGGAGGAAAATACCGACATAGAAGCATGGGATGCGGTCATCGAAAATAACGATGGATTATTGGAAAAGTATATCGCAGGAGAGCCAATCAGCCGGGAAGAACTTGCGCGGGAGGAACAGCGGCGGGTTCAAGCCGCTTCCCTGTTCCCAGTCTATCATGGTAGCGCCAAAAACGGCCTTGGCATTCAACGGTTGATGGATGCGGTGATAGGGCTGTTCCAACCGACCAAGGAACAGGGGCGCACCGCCCTGTGCGGCAGCGTTTTCAAGGTGGAGTATACAGATTGCGGCCAGAGGCTTGTCTATCTGCGGCTATACAGCGGAACGCTGCGTCTGCGGGATACGGTGGCCCTGGCCGGGAGAGAAAAGCTGAAAATCACAGAGATGCGTATTCCATCCAAAGGGGAGATTGTTCGGACAGATACCGCCCATAAGGGCGAAATTGTCATCCTTCCCAGCGACAGTTTGAGATTAAACGATATATTGGGGGACAAAACCCAACTTCCTCGTGAAATGTGGAGTGATGCTCCCTTCTCTATGCTGCGGACAACGATTACGCCAAAAACGGCAGAGCAAAGAGATCGGTTGCTGGACGCTCTTACGCAAATTGCGGATACTGACCCGCTTTTGTGCTACGAGGTGGATTCCATCACCCAAGAGATCATTCTTTCTTTTTTGGGCCGGGTGCAGTTGGAGGTTGTTTCCGCTTTGCTGGCGGAAAAGTATAAGATTGAAACAGCGGTGAAGGAACCCACCGTCATTTATTTAGAGCGGCCGCTCAAAGTGGCCAGCCACACCATCCATATCGAGGTGCCGCCCAACCCGTTTTGGGCATCCATCGGACTGTCTGTTACGCCGCTCCCGCTTGGCTCCGGTGTACAATACGAGAGCCGGGTTTCCCTGGGATACTTGAACCAGAGTTTTCAAAACGCTGTCATGGATGGTATCCGTTACGGTCTGGAGCAAGGCTTGTGTGGCTGGAACGTAACGGACTGTAAGATTTGCTTTGAATACGGGCTTTATTATAGCCCGGTCAGCACGCCGGCGGACTTTCGCTCATTGGCCCCGATTGTATTGGAACTGGCATTAAAGGAATCAGGGACACAGTTGCTGGAACCTTATCTCTCCTTCACCCTCTATGCGCCCCAGGAATACCTTTCCAGGGCTTATCATGATGCGCCGAAATATTGTGCCACCATCGAAACGGCCCAGATAAAAAAGGATGAAGTTGTCTTTACTGGCGAGATTCCCGCCCGTTGCATACAGGCATACCGTACTGATTTGGCCTCTTACACCAATGGGCGGAGCGTGTGCCTGACGGAACTGAAAGGGTATCAGGCCGCTGTCGGCCAGCCGGTCATCCAGCCCCGCCGTCCAAACAGCCGCCTGGACAGGGTGCGCCATATGTTTCAGAAGGTAATGTAA", "fmax": "10228", "accession": "AY049983.2", "fmin": "8308", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Trueperella pyogenes", "NCBI_taxonomy_id": "1661", "NCBI_taxonomy_cvterm_id": "43836"}, "protein_sequence": {"accession": "AAL09826.1", "sequence": "MNIINIGILAHVDAGKTTLTESLLYASGTISEPGSVEKGTTRTDTMFLERQRGITIQTAVTSFQWHSCKVNIVDTPGHMDFLAEVYRSLAVLDGAILVLSARDGVQAQTRVLFHALRKLNIPTIIFINKIDQVDIDLEGVYQSVRDKLSADIIIKQTVSLSPEIVLEENTDIEAWDAVIENNDGLLEKYIAGEPISREELAREEQRRVQAASLFPVYHGSAKNGLGIQRLMDAVIGLFQPTKEQGRTALCGSVFKVEYTDCGQRLVYLRLYSGTLRLRDTVALAGREKLKITEMRIPSKGEIVRTDTAHKGEIVILPSDSLRLNDILGDKTQLPREMWSDAPFSMLRTTITPKTAEQRDRLLDALTQIADTDPLLCYEVDSITQEIILSFLGRVQLEVVSALLAEKYKIETAVKEPTVIYLERPLKVASHTIHIEVPPNPFWASIGLSVTPLPLGSGVQYESRVSLGYLNQSFQNAVMDGIRYGLEQGLCGWNVTDCKICFEYGLYYSPVSTPADFRSLAPIVLELALKESGTQLLEPYLSFTLYAPQEYLSRAYHDAPKYCATIETAQIKKDEVVFTGEIPARCIQAYRTDLASYTNGRSVCLTELKGYQAAVGQPVIQPRRPNSRLDRVRHMFQKVM"}}}}, "model_name": "tet(W/32/O)", "ARO_category": {"36189": {"category_aro_name": "tetracycline antibiotic", "category_aro_cvterm_id": "36189", "category_aro_accession": "3000050", "category_aro_class_name": "Drug Class", "category_aro_description": "These antibiotics are derived from tetracycline, a polyketide antibiotic that inhibits the 30S subunit of bacterial ribosomes."}, "35921": {"category_aro_name": "tetracycline-resistant ribosomal protection protein", "category_aro_cvterm_id": "35921", "category_aro_accession": "0000002", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A family of proteins known to bind to the 30S ribosomal subunit. This interaction prevents tetracycline and tetracycline derivatives from inhibiting ribosomal function. Thus, these proteins confer elevated resistance to tetracycline derivatives as a ribosomal protection protein."}, "35968": {"category_aro_name": "tetracycline", "category_aro_cvterm_id": "35968", "category_aro_accession": "0000051", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetracycline is a broad-spectrum polyketide antibiotic produced by many Streptomyces. It works by inhibiting action of the prokaryotic 30S ribosome."}, "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": "tet(W/32/O)", "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.", "CARD_short_name": "tet(W/32/O)", "ARO_id": "45701", "model_type_id": "40292"}, "5793": {"model_id": "5793", "ARO_accession": "3007123", "model_param": {"blastp_bit_score": {"param_value": "900", "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": "Tet(O/W/O) is a mosaic tetracycline resistance gene and ribosomal protection protein.", "model_sequences": {"sequence": {"8469": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAATAATTAACTTAGGCATTCTGGCTCACGTTGACGCAGGAAAGACAACATTAACGGAAAGTTTATTGTATACCAGTGGTGCAATTGCAGAACTAGGGAGCGTAGATGAAGGCACAACAAGGACAGATACAATGAATTTGGAGCGTCAAAGGGGAATCACTATCCAGACAGCAGTGACATCTTTTCAGTGGGAGGATGTAAAAGTCAACATTATAGATACGCCAGGCCATATGGATTTTTTGGCGGAGGTGTACCGCTCTTTGGCTGTTTTAGATGGGGCCATCTTGGTGATCTCCGCGAAAGATGGCGTGCAGGCCCAGACCCGTATTCTGTTCCATGCCCTGCGGAAAATGAACATTCCCACCGTTATCTTTATCAACAAGATCGACCAGGCTGGCGTTGATTTGCAGAGCGTGGTTCAGTCTGTTCGGGATAAGCTCTCCGCCGATATTATCATCAAGCAGACGGTGTCGCTGTCCCCGGAAATAGTCCTGGAGGAAAATACCGACATAGAAGCATGGGATGCGGTCATCGAAAATAACGATGCATTATTGGAAAAGTATATCGCAGGAGAACCAATCAGCCAGGAAAAACTTGCGCGGGAGGAACAGCGGCGGGTTCAAGAAGCCTCCCTGTTTCCGGTCTATCATGGCAGCGCCAAAAAGGGCCTTGGCATTCAACCGTTGATGGATGCGGTGACAGGACTGTTCCAACCGATTGGGGAACAGGGGAGCGCCACCCTATGCGGCAGCGTTTTCAAGGTTGAGTACACCGATTGCGGCCAGCGGCGTGTCTATCTGCGGCTATACAGCGGAACGCTGCGCCTGCGGGATACGGTGGCCCTGGCCGGGAGAGAAAAGCTGAAAATCACAGAGATGCGTATTCCATCCAAAGGGGAAATTGTTCGGACAGACACCGCTTATCCGGGCGAAATTGTTATCCTTCCCAGCGACAGCGTGAGGTTAAACGATGTATTAGGGGATCAAACCCGGCTCCCTCGTAAAAGGTGGCGCGAGGCCCCCCTCCCCATGCTGCGGACGACGATTGCGCCGAAAACGGCAGCGCAAAGAGAACGGCTGCTGGACGCTCTTACGCAACTTGCGGATACTGACCCGCTTTTGCGCTGCGAAGTGGATTCCATCACCCATGAGATCATTCTTTCTTTTTTGGGCCGGGTGCAGTTGGAGGTCGTTTCCGCTTTGCTGTCGGAAAAATACAAGATTGAAACAGTGGTAAAGGAACCCACCGTCATTTATATGGAGCGGCCGCTCAAAGCAGCCAGCCACACCATCCATATCGAGGTGCCGCCCAACCCGTTTTGGGCATCTATCGGACTGTCTGTTACACCACTCCCGCTTGGCTCCGGCGTACAATACGAGAGCCGGGTTTCGCTGGGATACTTGAACCAGAGTTTTCAAAACGCTGTCAGGGATGGTATCCGTTACGGGCTGGAGCAGGGCTTGTTCGGCTGGAACGTAACGGACTGTAAGATTTGCTTTGAATACGGGCTTTATTACAGTCCAGTCAGCACGCCGGCGGACTTCCGCTCATTGGCCCCGATTGTATTGGAACAGGCATTGAAGGAATCGGGGACGCAGCTGCTGGAACCTTATCTCTCCTTCACCCTCTATGCACCGCAGGAATATCTCTCACGGGCGTATCATGATGCTCCAAGGTATTGTGCAGATATTGTAAGTACTCAGATAAAGAATGACGAGGTCATTCTGAAAGGAGAAATCCCTGCTAGATGTATTCAAGAATACAGGAACGATTTAACTTATTTCACAAATGGGCAGGGAGTCTGCTTGACAGAGTTAAAAGGATACCAGCCAGCTATTGGTAAATTTATTTGCCAACCCCGCCGCCCGAATAGCCGTATAGATAAGGTTCGGCATATGTTCCACAAGTTAGCTTAA", "fmax": "1920", "accession": "AY196920.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Megasphaera elsdenii", "NCBI_taxonomy_id": "907", "NCBI_taxonomy_cvterm_id": "36809"}, "protein_sequence": {"accession": "AAO42740.1", "sequence": "MKIINLGILAHVDAGKTTLTESLLYTSGAIAELGSVDEGTTRTDTMNLERQRGITIQTAVTSFQWEDVKVNIIDTPGHMDFLAEVYRSLAVLDGAILVISAKDGVQAQTRILFHALRKMNIPTVIFINKIDQAGVDLQSVVQSVRDKLSADIIIKQTVSLSPEIVLEENTDIEAWDAVIENNDALLEKYIAGEPISQEKLAREEQRRVQEASLFPVYHGSAKKGLGIQPLMDAVTGLFQPIGEQGSATLCGSVFKVEYTDCGQRRVYLRLYSGTLRLRDTVALAGREKLKITEMRIPSKGEIVRTDTAYPGEIVILPSDSVRLNDVLGDQTRLPRKRWREAPLPMLRTTIAPKTAAQRERLLDALTQLADTDPLLRCEVDSITHEIILSFLGRVQLEVVSALLSEKYKIETVVKEPTVIYMERPLKAASHTIHIEVPPNPFWASIGLSVTPLPLGSGVQYESRVSLGYLNQSFQNAVRDGIRYGLEQGLFGWNVTDCKICFEYGLYYSPVSTPADFRSLAPIVLEQALKESGTQLLEPYLSFTLYAPQEYLSRAYHDAPRYCADIVSTQIKNDEVILKGEIPARCIQEYRNDLTYFTNGQGVCLTELKGYQPAIGKFICQPRRPNSRIDKVRHMFHKLA"}}}}, "model_name": "tet(O/W/O)", "ARO_category": {"36189": {"category_aro_name": "tetracycline antibiotic", "category_aro_cvterm_id": "36189", "category_aro_accession": "3000050", "category_aro_class_name": "Drug Class", "category_aro_description": "These antibiotics are derived from tetracycline, a polyketide antibiotic that inhibits the 30S subunit of bacterial ribosomes."}, "35921": {"category_aro_name": "tetracycline-resistant ribosomal protection protein", "category_aro_cvterm_id": "35921", "category_aro_accession": "0000002", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A family of proteins known to bind to the 30S ribosomal subunit. This interaction prevents tetracycline and tetracycline derivatives from inhibiting ribosomal function. Thus, these proteins confer elevated resistance to tetracycline derivatives as a ribosomal protection protein."}, "35968": {"category_aro_name": "tetracycline", "category_aro_cvterm_id": "35968", "category_aro_accession": "0000051", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetracycline is a broad-spectrum polyketide antibiotic produced by many Streptomyces. It works by inhibiting action of the prokaryotic 30S ribosome."}, "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": "tet(O/W/O)", "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.", "CARD_short_name": "tet(O/W/O)", "ARO_id": "45700", "model_type_id": "40292"}, "5792": {"model_id": "5792", "ARO_accession": "3007122", "model_param": {"blastp_bit_score": {"param_value": "900", "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": "Tet(O/W/32/O) is a mosaic tetracycline resistance gene and ribosomal protection protein.", "model_sequences": {"sequence": {"8468": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAATAATTAACTTAGGCATTCTGGCTCACGTTGACGCAGGAAAGACAACATTAACGGAAAGTTTATTGTATACCAGTGGTGCAATTGCAGAACTAGGGAGCGTAGATGAAGGCACAACAAGGACAGATACAATGAATTTGGAGCGTCAAAGGGGAATCACTATCCAGACAGCAGTGACATCTTTTCAGTGGGAGGATGTAAAAGTCAACATTATAGATACGCCAGGCCATATGGATTTTTTGGCGGAGGTGTACCGCTCTTTGGCTGTTTTAGATGGGGCCATCTTGGTGATCTCCGCTAAAGATGGCGTGCAGGCCCAGACCCGTATTCTGTTCCATGCCCTGCGGAAAATGAACATTCCCACCGTTATCTTTATCAACAAGATCGACCAGGCTGGCGTTGATTTGCAGAGCGTGGTTCAGTCTGTTCGGGATAAGCTCTCCGCCGATATTATCATCAAGCAGACGGTGTCACTGTCCCCGGAAATAGTCCTGGAGGAAAATACCGACATAGAAGCATGGGATGCGGTCATCGAAAATAACGATAAATTATTGGAAAAGTATATCGCAGGAGAACCAATCAGCCGGGAAAAACTTGTGCGGGAGGAACAGCGGCGGGTTCAAGACGCCTCCCTGTTCCCGGTCTATTATGGCAGCGCCAAAAAGGGCCTTGGCATTCAACCGTTGATGGATGCGGTGACAGGGCTGTTCCAACCGATTGGGGAACAGGGGAGCGCCGCCCTATGCGGCAGCGTTTTCAAGGTGGAGTATACAGATTGCGGCCAGCGGCGTGTCTATCTACGGCTATACAGCGGAACGCTGCGCCTGCGGGATACGGTGGCCCTGGCCGGGAGAGAAAAGCTGAAAATCACAGAGATGCGTATTCCATCCAAAGGGGAAATTGTTCGGACAGACACCGCTTATCCGGGAGAAATTGTTATTTTAGCTGATGATACTTTGAAACTGAACGACATTCTAGGAAATGAAAAACTCCTGCCTCATAAAACACGGATTGATAATCCCATGCCATTACTTCGGACAACGGTAGAGCCGCAAAAGCCGGAGCAAAGGGAAGCCCTGTTAAATGCCCTCGCAGAGATTGCTGATACAGACCCTCTTTTGCATTTTGACATTGATACTGTTACACATGAGATTATGTTATCTTTTTTGGGAAAAGTACAGTTAGAAGTTATTTGTTCGCTATTAGAAGAAAAATATCATGTGGGCGTGGCTATGAAAGAGCCTTCGGTTATTTATCTGGAAAGACCGCTTAGAAAAGCAGAATATACCATCCACATAGAAGTCCCGCCCAACCCGTTTTGGGCATCCATCGGACTGTCTGTTACACCACTCCCGCTTGGCTCCGGTGTACAATACGAGAGCCGGGTTTCGCTGGGATACTTGAACCAGAGTTTTCAAAACGCTGTCAGGGATGGTATCCGTTACGGGCTGGAGCAGGGGCTGTATGGATGGAAAGTGACAGACTGTAAAATCTGTTTTGAATATGGATTGTATTATAGTCCTGTAAGTACCCCCGCAGACTTTCGGCTGCTTTCCCCTATCGTATTGGAGCAGGCTTTAAAAAAAGCAGGGACAGAACTATTAGAGCCATATCTCCACTTTGAAATTTATGCACCGCAGGAATATCTCTCACGGGCGTATCATGATGCTCCAAGGTATTGTGCAGATATTGTAAGTACTCAGATAAAGAATGACGAGGTCATTCTGAAAGGAGAAATCCCTGCTAGATGTATTCAAGAATACAGGAACGATTTAACTAATTTCACAAATGGGCAGGGAGTCTGCTTGACAGAGTTAAAAGGATACCAGCCAGCTATTGGTAAATTTATTTGCCAACCCCGCCGCCCGAATAGCCGTATAGATAAGGTTCGGCATATGTTCCACAAGTTAGCTTAA", "fmax": "1948", "accession": "DQ525023.1", "fmin": "28", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Lactobacillus johnsonii", "NCBI_taxonomy_id": "33959", "NCBI_taxonomy_cvterm_id": "42569"}, "protein_sequence": {"accession": "ABF69686.1", "sequence": "MKIINLGILAHVDAGKTTLTESLLYTSGAIAELGSVDEGTTRTDTMNLERQRGITIQTAVTSFQWEDVKVNIIDTPGHMDFLAEVYRSLAVLDGAILVISAKDGVQAQTRILFHALRKMNIPTVIFINKIDQAGVDLQSVVQSVRDKLSADIIIKQTVSLSPEIVLEENTDIEAWDAVIENNDKLLEKYIAGEPISREKLVREEQRRVQDASLFPVYYGSAKKGLGIQPLMDAVTGLFQPIGEQGSAALCGSVFKVEYTDCGQRRVYLRLYSGTLRLRDTVALAGREKLKITEMRIPSKGEIVRTDTAYPGEIVILADDTLKLNDILGNEKLLPHKTRIDNPMPLLRTTVEPQKPEQREALLNALAEIADTDPLLHFDIDTVTHEIMLSFLGKVQLEVICSLLEEKYHVGVAMKEPSVIYLERPLRKAEYTIHIEVPPNPFWASIGLSVTPLPLGSGVQYESRVSLGYLNQSFQNAVRDGIRYGLEQGLYGWKVTDCKICFEYGLYYSPVSTPADFRLLSPIVLEQALKKAGTELLEPYLHFEIYAPQEYLSRAYHDAPRYCADIVSTQIKNDEVILKGEIPARCIQEYRNDLTNFTNGQGVCLTELKGYQPAIGKFICQPRRPNSRIDKVRHMFHKLA"}}}}, "model_name": "tet(O/W/32/O)", "ARO_category": {"36189": {"category_aro_name": "tetracycline antibiotic", "category_aro_cvterm_id": "36189", "category_aro_accession": "3000050", "category_aro_class_name": "Drug Class", "category_aro_description": "These antibiotics are derived from tetracycline, a polyketide antibiotic that inhibits the 30S subunit of bacterial ribosomes."}, "35921": {"category_aro_name": "tetracycline-resistant ribosomal protection protein", "category_aro_cvterm_id": "35921", "category_aro_accession": "0000002", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A family of proteins known to bind to the 30S ribosomal subunit. This interaction prevents tetracycline and tetracycline derivatives from inhibiting ribosomal function. Thus, these proteins confer elevated resistance to tetracycline derivatives as a ribosomal protection protein."}, "35968": {"category_aro_name": "tetracycline", "category_aro_cvterm_id": "35968", "category_aro_accession": "0000051", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetracycline is a broad-spectrum polyketide antibiotic produced by many Streptomyces. It works by inhibiting action of the prokaryotic 30S ribosome."}, "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": "tet(O/W/32/O)", "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.", "CARD_short_name": "tet(O/W/32/O)", "ARO_id": "45699", "model_type_id": "40292"}, "5791": {"model_id": "5791", "ARO_accession": "3007121", "model_param": {"blastp_bit_score": {"param_value": "900", "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": "Tet(O/W) is a mosaic tetracycline resistance gene and ribosomal protection protein.", "model_sequences": {"sequence": {"8467": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAATAATTAACTTAGGCATTCTGGCTCACGTTGACGCAGGAAAGACAACATTAACGGAAAGTTTATTGTATACCAGTGGTGCAATTGCAGAACTAGGGAGCGTAGATGAAGGCACAACAAGGACAGATACAATGAATTTGGAGCGTCAAAGGGGAATCACTATCCAGACAGCAGTGACATCTTTTCAGTGGGAGGATGTAAAAGTCAACATTATAGATACGCCAGGCCATATGGATTTTTTGGCGGAGGTGTACCGCTCTTTGGCTGTTTTAGATGGGGCCATCTTGGTGATCTCCGCGAAAGATGGCGTGCAGGCCCAGACCCGTATTCTGTTCCATGCCCTGCGGAAAATGAACATTCCCACCGTTATCTTTATCAACAAGATCGACCAGGCTGGCGTTGATTTGCAGAGCGTGGTTCAGTCTGTTCGGGATAAGCTCTCCGCCGATATTATCATCAAGCAGACGGTGTCGCTGTCCCCGGAAATAGTCCTGGAGGAAAATACCGACATAGAAGCATGGGATGCGGTCATCGAAAATAACGATGCATTATTGGAAAAGTATATCGCAGGAGAACCAATCAGCCAGGAAAAACTTGCGCGGGAGGAACAGCGGCGGGTTCAAGAAGCCTCCCTGTTTCCGGTCTATCATGGCAGCGCCAAAAAGGGCCTTGGCATTCAACCGTTGATGGATGCGGTGACAGGACTGTTCCAACCGATTGGGGAACAGGGGAGCGCCACCCTATGCGGCAGCGTTTTCAAGGTTGAGTACACCGATTGCGGCCAGCGGCGTGTCTATCTGCGGCTATACAGCGGAACGCTGCGCCTGCGGGATACGGTGGCCCTGGCCGGGAGAGAAAAGCTGAAAATCACAGAGATGCGTATTCCATCCAAAGGGGAAATTGTTCGGACAGACACCGCTTATCCGGGCGAAATTGTTATCCTTCCCAGCGACAGCGTGAGGTTAAACGATGTATTAGGGGATCAAACCCGGCTCCCTCGTAAAAGGTGGCGCGAGGCCCCCCTCCCCATGCTGCGGACGACGATTGCGCCGAAAACGGCAGCGCAAAGAGAACGGCTGCTGGACGCTCTTACGCAACTTGCGGATACTGACCCGCTTTTGCGCTGCGAAGTGGATTCCATCACCCATGAGATCATTCTTTCTTTTTTGGGCCGGGTGCAGTTGGAGGTCGTTTCCGCTTTGCTGTCGGAAAAATACAAGATTGAAACAGTGGTAAAGGAACCCACCGTCATTTATATGGAGCGGCCGCTCAAAGCAGCCAGCCACACCATCCATATCGAGGTGCCGCCCAACCCGTTTTGGGCATCTATCGGACTGTCTGTTACACCACTCCCGCTTGGCTCCGGCGTACAATACGAGAGCCGGGTTTCGCTGGGATACTTGAACCAGAGTTTTCAAAACGCTGTCAGGGATGGTATCCGTTACGGGCTGGAGCAGGGCTTGTTCGGCTGGAACGTAACGGACTGTAAGATTTGCTTTGAATACGGGCTTTATTACAGTCCAGTCAGCACGCCGGCGGACTTCCGCTCATTGGCCCCGATTGTATTGGAACAGGCATTGAAGGAATCGGGGACGCAGCTGCTGGAACCTTATCTCTCCTTCACCCTCTATGCGCCCCAGGAATACCTTTCCAGGGCTTATCATGATGCACCGAAATACTGTGCCACCATCGAAACGGCCCAGGTAAAAAAGGATGAAGTTGTCTTTACTGGCGAGATTCCCGCCCGCTGTATACAGGCATACCGTACTGATCTGGCCTTTTACACCAACGGGCAGAGCGTATGCCTTACAGAGCTAAAAGGGTATCAGGCCGCTGTCGGCCAGCCGGTCATCCAGCCCCGCCGTCCAAACAACCGCCTGGACAAGGTGCGCCATATGTTTCAGAAGGTAATGTAA", "fmax": "1920", "accession": "AY485122.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Megasphaera elsdenii", "NCBI_taxonomy_id": "907", "NCBI_taxonomy_cvterm_id": "36809"}, "protein_sequence": {"accession": "AAR29969.1", "sequence": "MKIINLGILAHVDAGKTTLTESLLYTSGAIAELGSVDEGTTRTDTMNLERQRGITIQTAVTSFQWEDVKVNIIDTPGHMDFLAEVYRSLAVLDGAILVISAKDGVQAQTRILFHALRKMNIPTVIFINKIDQAGVDLQSVVQSVRDKLSADIIIKQTVSLSPEIVLEENTDIEAWDAVIENNDALLEKYIAGEPISQEKLAREEQRRVQEASLFPVYHGSAKKGLGIQPLMDAVTGLFQPIGEQGSATLCGSVFKVEYTDCGQRRVYLRLYSGTLRLRDTVALAGREKLKITEMRIPSKGEIVRTDTAYPGEIVILPSDSVRLNDVLGDQTRLPRKRWREAPLPMLRTTIAPKTAAQRERLLDALTQLADTDPLLRCEVDSITHEIILSFLGRVQLEVVSALLSEKYKIETVVKEPTVIYMERPLKAASHTIHIEVPPNPFWASIGLSVTPLPLGSGVQYESRVSLGYLNQSFQNAVRDGIRYGLEQGLFGWNVTDCKICFEYGLYYSPVSTPADFRSLAPIVLEQALKESGTQLLEPYLSFTLYAPQEYLSRAYHDAPKYCATIETAQVKKDEVVFTGEIPARCIQAYRTDLAFYTNGQSVCLTELKGYQAAVGQPVIQPRRPNNRLDKVRHMFQKVM"}}}}, "model_name": "tet(O/W)", "ARO_category": {"36189": {"category_aro_name": "tetracycline antibiotic", "category_aro_cvterm_id": "36189", "category_aro_accession": "3000050", "category_aro_class_name": "Drug Class", "category_aro_description": "These antibiotics are derived from tetracycline, a polyketide antibiotic that inhibits the 30S subunit of bacterial ribosomes."}, "35921": {"category_aro_name": "tetracycline-resistant ribosomal protection protein", "category_aro_cvterm_id": "35921", "category_aro_accession": "0000002", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A family of proteins known to bind to the 30S ribosomal subunit. This interaction prevents tetracycline and tetracycline derivatives from inhibiting ribosomal function. Thus, these proteins confer elevated resistance to tetracycline derivatives as a ribosomal protection protein."}, "35968": {"category_aro_name": "tetracycline", "category_aro_cvterm_id": "35968", "category_aro_accession": "0000051", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetracycline is a broad-spectrum polyketide antibiotic produced by many Streptomyces. It works by inhibiting action of the prokaryotic 30S ribosome."}, "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": "tet(O/W)", "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.", "CARD_short_name": "tet(O/W)", "ARO_id": "45698", "model_type_id": "40292"}, "5790": {"model_id": "5790", "ARO_accession": "3007120", "model_param": {"blastp_bit_score": {"param_value": "875", "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": "Tet(O/M/O) is a mosaic tetracycline resistance gene and ribosomal protection protein.", "model_sequences": {"sequence": {"8466": {"dna_sequence": {"partial": "0", "sequence": "ATGAAAATAATTAACTTAGGCATTCTGGCTCACGTTGACGCAGGAAAGACAACATTAACGGAAAGTTTATTGTATACCAGTGGTGCAATTGCAGAACTAGGGAGCGTAGATGAAGGCACAACAAGGACAGATACAATGAATTTGGAGCGTCAAAGGGGAATCACTATCCAGACAGCAGTGACATCTTTTCAGTGGGAGGATGTAAAAGTCAACATTATAGATACGCCAGGCCATATGGATTTTTTGGCGGAAGTATACCGTTCTTTATCCGTATTAGACGGAGCAGTATTATTAGTTTCTGCAAAGGATGGCATACAGGCACAGACCCGTATACTGTTTCATGCACTACAGATAATGAAGATTCCGACAATTTTTTTCATCAATAAAATTGACCAAGAGGGGATTGATTTGCCAATGGTATATCGGGAAATGAAAGCAAAGCTTTCTTCGGAAATTATAGTGAAGCAAAAGGTTGGGCAGCATCCCCATATAAATGTAACGGACAATGACGATATGGAACAGTGGGATGCGGTAATTATGGGAAACGATGAACTATTAGAGAAATATATGTCAGGGAAACCGTTTAAAATGTCAGAACTGGAACAGGAAGAAAACAGGAGATTCCAAAACGGAACGTTATTTCCCGTTTATCACGGAAGCGCTAAAAACAATCTGGGGATTCGGCAGCTTATAGAAGTAATTGCCAGTAAATTTTATTCATCAACGCCTGAAGGTCAATCTGAACTATGCGGGCAGGTTTTTAAGATTGAATATTCGGAAGAAAGACAACGTCTTGCATATGTACGCCTTTATGGCGGAATCCTGCATTTGCGGGATTCGGTTAGAATATCGGAAAAGGAAAAAATAAAAATTACAGAAATGTATACTTCAATAAATGGTGAATTATGTAAAATTGATAAGGCTTATTCCGGGGAAATTGTTATTTTGCAAAATGAGTTTTTGAAGCTAAATAGTGTTCTTGGAGATACAAAGCTATTGCCACAGAGAGAGAGAATTGAAAATCCTCTCCCTATGCTCCAAACAACTGTTGAACCGAGCAAACCTCAACAAAGGGAAATGTTACTTGATGCACTTTTAGAAATCTCCGACAGTGACCCGCTTCTACAATATTATGTGGATACTACAACGCATGAGATTATACTTTCTTTTTTGGGGAATGTGCAGATGGAAGTCATTTGTGCCATCCTTGAGGAAAAATATCATGTGGAGGCAGAAATAAAAGAGCCTACTGTTATATATATGGAAAGACCGCTTAGAAAAGCAGAATATACCATCCACATAGAAGTCCCGCCAAATCCTTTCTGGGCTTCTGTCGGGTTGTCCATAGAGCCGCTCCCTATTGGAAGCGGAGTGCAGTATGAAAGCAGAGTTTCACTTGGATATTTAAATCAATCGTTCCAAAATGCGGTTATGGAGGGGGTTCTTTATGGCTGCGAGCAGGGGCTGTATGGATGGAAAGTGACAGACTGTAAAATCTGTTTTGAATATGGATTGTATTATAGTCCTGTAAGTACCCCCGCAGACTTTCGGCTGCTTTCCCCTATCGTATTGGAGCAGGCTTTAAAAAAAGCAGGGACAGAACTATTAGAGCCATATCTCCACTTTGAAATTTATGCACCGCAGGAATATCTCTCACGGGCGTATCATGATGCTCCAAGGTATTGTGCAGATATTGTAAGTACTCAGATAAAGAATGACGAGGTCATTCTGAAAGGAGAAATCCCTGCTAGATGTATTCAAGAATACAGGAACGATTTAACTTGTTTCACAAATGGGCAGGGAGTCTGCTTGACAGAGTTAAAAGGATACCAGCCAGCTATTGGTAAATTTATTTGCCAACCCCGCCGCCCGAATAGCCGTATAGATAAGGTTCGGCATATGTTCCACAAGTTAGCTTAA", "fmax": "1920", "accession": "AY394560.1", "fmin": "0", "strand": "+"}, "NCBI_taxonomy": {"NCBI_taxonomy_name": "Campylobacter coli", "NCBI_taxonomy_id": "195", "NCBI_taxonomy_cvterm_id": "36835"}, "protein_sequence": {"accession": "AAR29485.1", "sequence": "MKIINLGILAHVDAGKTTLTESLLYTSGAIAELGSVDEGTTRTDTMNLERQRGITIQTAVTSFQWEDVKVNIIDTPGHMDFLAEVYRSLSVLDGAVLLVSAKDGIQAQTRILFHALQIMKIPTIFFINKIDQEGIDLPMVYREMKAKLSSEIIVKQKVGQHPHINVTDNDDMEQWDAVIMGNDELLEKYMSGKPFKMSELEQEENRRFQNGTLFPVYHGSAKNNLGIRQLIEVIASKFYSSTPEGQSELCGQVFKIEYSEERQRLAYVRLYGGILHLRDSVRISEKEKIKITEMYTSINGELCKIDKAYSGEIVILQNEFLKLNSVLGDTKLLPQRERIENPLPMLQTTVEPSKPQQREMLLDALLEISDSDPLLQYYVDTTTHEIILSFLGNVQMEVICAILEEKYHVEAEIKEPTVIYMERPLRKAEYTIHIEVPPNPFWASVGLSIEPLPIGSGVQYESRVSLGYLNQSFQNAVMEGVLYGCEQGLYGWKVTDCKICFEYGLYYSPVSTPADFRLLSPIVLEQALKKAGTELLEPYLHFEIYAPQEYLSRAYHDAPRYCADIVSTQIKNDEVILKGEIPARCIQEYRNDLTCFTNGQGVCLTELKGYQPAIGKFICQPRRPNSRIDKVRHMFHKLA"}}}}, "model_name": "tet(O/M/O)", "ARO_category": {"36189": {"category_aro_name": "tetracycline antibiotic", "category_aro_cvterm_id": "36189", "category_aro_accession": "3000050", "category_aro_class_name": "Drug Class", "category_aro_description": "These antibiotics are derived from tetracycline, a polyketide antibiotic that inhibits the 30S subunit of bacterial ribosomes."}, "35921": {"category_aro_name": "tetracycline-resistant ribosomal protection protein", "category_aro_cvterm_id": "35921", "category_aro_accession": "0000002", "category_aro_class_name": "AMR Gene Family", "category_aro_description": "A family of proteins known to bind to the 30S ribosomal subunit. This interaction prevents tetracycline and tetracycline derivatives from inhibiting ribosomal function. Thus, these proteins confer elevated resistance to tetracycline derivatives as a ribosomal protection protein."}, "35968": {"category_aro_name": "tetracycline", "category_aro_cvterm_id": "35968", "category_aro_accession": "0000051", "category_aro_class_name": "Antibiotic", "category_aro_description": "Tetracycline is a broad-spectrum polyketide antibiotic produced by many Streptomyces. It works by inhibiting action of the prokaryotic 30S ribosome."}, "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": "tet(O/M/O)", "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.", "CARD_short_name": "tet(O/M/O)", "ARO_id": "45697", "model_type_id": "40292"}}}