| Accession | ARO:3005040 |
| CARD Short Name | YajC |
| Definition | YajC interacts with the AcrAB-TolC efflux pump in a way that in uncharacterized but is shown to grant increased fitness in the presence of linezolid, rifampicin, and vancomycin. |
| AMR Gene Family | resistance-nodulation-cell division (RND) antibiotic efflux pump |
| Drug Class | tetracycline antibiotic, disinfecting agents and antiseptics, phenicol antibiotic, rifamycin antibiotic, penam, glycylcycline, cephalosporin, glycopeptide antibiotic, oxazolidinone antibiotic, fluoroquinolone antibiotic |
| Resistance Mechanism | antibiotic efflux |
| Efflux Component | efflux pump complex or subunit conferring antibiotic resistance |
| Resistomes with Perfect Matches | Pseudomonas aeruginosag+wgs, Pseudomonas fluorescensg |
| Resistomes with Sequence Variants | Pseudomonas aeruginosag+wgs, Pseudomonas brassicacearumwgs, Pseudomonas chlororaphiswgs, Pseudomonas fluorescensg+wgs, Pseudomonas monteiliig+wgs, Pseudomonas putidag+wgs |
| Classification | 26 ontology terms | Show + process or component of antibiotic biology or chemistry + antibiotic molecule + beta-lactam antibiotic + mechanism of antibiotic resistance + cephem + tetracycline antibiotic [Drug Class] + determinant of antibiotic resistance + antibiotic efflux [Resistance Mechanism] + disinfecting agents and antiseptics [Drug Class] + phenicol antibiotic [Drug Class] + efflux pump complex or subunit conferring antibiotic resistance [Efflux Component] + rifamycin antibiotic [Drug Class] + penam [Drug Class] + glycylcycline [Drug Class] + cephalosporin [Drug Class] + triclosan [Antibiotic] + cefalotin [Antibiotic] + ampicillin [Antibiotic] + chloramphenicol [Antibiotic] + rifampin [Antibiotic] + glycopeptide antibiotic [Drug Class] + oxazolidinone antibiotic [Drug Class] + resistance-nodulation-cell division (RND) antibiotic efflux pump [AMR Gene Family] + tetracycline [Antibiotic] + tigecycline [Antibiotic] + fluoroquinolone antibiotic [Drug Class] |
| Parent Term(s) | 5 ontology terms | Show + confers_resistance_to_antibiotic vancomycin [Antibiotic] + confers_resistance_to_antibiotic linezolid [Antibiotic] + confers_resistance_to_antibiotic rifampin [Antibiotic] + participates_in AcrAB-TolC + subunit of efflux pump conferring antibiotic resistance |
| Publications | Rundell EA, et al. 2020. J. Bacteriol. 202(6): A Screen for Antibiotic Resistance Determinants Reveals a Fitness Cost of the Flagellum in Pseudomonas aeruginosa. (PMID 31871033) |
Prevalence of YajC among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 413 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 |
|---|---|---|---|---|
| Pseudomonas aeruginosa | 100% | 0% | 68.16% | 0% |
| Pseudomonas brassicacearum | 0% | 0% | 4% | 0% |
| Pseudomonas chlororaphis | 0% | 0% | 3.23% | 0% |
| Pseudomonas fluorescens | 2.78% | 0% | 1.74% | 0% |
| Pseudomonas monteilii | 55.56% | 0% | 45.24% | 0% |
| Pseudomonas putida | 21.13% | 0% | 14.97% | 0% |
Model Type: protein homolog model
Model Definition: Protein Homolog Models (PHM) detect protein sequences based on their similarity to a curated reference sequence, using curated BLASTP bitscore cut-offs. Protein Homolog Models apply to all genes that confer resistance through their presence in an organism, such as the presence of a beta-lactamase gene on a plasmid. PHMs include a reference sequence and a bitscore cut-off for detection using BLASTP. A Perfect RGI match is 100% identical to the reference protein sequence along its entire length, a Strict RGI match is not identical but the bit-score of the matched sequence is greater than the curated BLASTP bit-score cutoff, Loose RGI matches have a bit-score less than the curated BLASTP bit-score cut-off.
Bit-score Cut-off (blastP): 200