| Accession | ARO:3000024 |
| CARD Short Name | patA |
| Definition | PatA is an ABC transporter of Streptococcus pneumoniae that interacts with PatB to confer fluoroquinolone resistance. |
| AMR Gene Family | ATP-binding cassette (ABC) antibiotic efflux pump |
| Drug Class | fluoroquinolone antibiotic |
| Resistance Mechanism | antibiotic efflux |
| Efflux Component | efflux pump complex or subunit conferring antibiotic resistance |
| Resistomes with Perfect Matches | Streptococcus pneumoniaeg+wgs |
| Resistomes with Sequence Variants | Klebsiella pneumoniaewgs, Mycobacterium tuberculosiswgs, Shigella flexneriwgs, Streptococcus cristatusg+wgs, Streptococcus gwangjuenseg, Streptococcus pneumoniaeg+wgs |
| Classification | 10 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + antibiotic molecule + determinant of antibiotic resistance + antibiotic efflux [Resistance Mechanism] + fluoroquinolone antibiotic [Drug Class] + efflux pump complex or subunit conferring antibiotic resistance [Efflux Component] + ATP-binding cassette (ABC) antibiotic efflux pump [AMR Gene Family] + norfloxacin [Antibiotic] + ciprofloxacin [Antibiotic] |
| Parent Term(s) | 2 ontology terms | Show |
| Publications | El Garch F, et al. 2010. J Antimicrob Chemother 65(10): 2076-2082. Fluoroquinolones induce the expression of patA and patB, which encode ABC efflux pumps in Streptococcus pneumoniae. (PMID 20709735) Garvey MI, et al. 2010. Antimicrob Agents Chemother 55(1): 190-196. Overexpression of patA and patB, which encode ABC transporters, is associated with fluoroquinolone resistance in clinical isolates of Streptococcus pneumoniae. (PMID 20937787) |
Prevalence of patA among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 263 important pathogens (see methodological details and complete list of analyzed pathogens). Values reflect percentage of genomes, plasmids, genome islands, or whole-genome shotgun assemblies that have at least one hit to the AMR detection model. Default view includes percentages calculated based on Perfect plus Strict RGI hits. Select the checkbox to view percentages based on only Perfect matches to AMR reference sequences curated in CARD (note: this excludes resistance via mutation as references in protein variant models are often wild-type, sensitive sequences).
| Species | NCBI Chromosome | NCBI Plasmid | NCBI WGS | NCBI GI |
|---|---|---|---|---|
| Escherichia coli | 0% | 0% | 0% | 0% |
| Klebsiella pneumoniae | 0% | 0% | 0.02% | 0% |
| Mycobacterium tuberculosis | 0% | 0% | 0.02% | 0% |
| Shigella flexneri | 0% | 0% | 0.16% | 0% |
| Streptococcus cristatus | 100% | 0% | 100% | 0% |
| Streptococcus gwangjuense | 100% | 0% | 0% | 0% |
| Streptococcus pneumoniae | 99.32% | 0% | 93.95% | 0% |
Model Type: protein homolog model
Model Definition: 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.
Bit-score Cut-off (blastP): 750