| Ontology | CARD's Antibiotic Resistance Ontology |
| Accession | ARO:3001328 |
| Synonym(s) | cmlA cmr |
| CARD Short Name | Ecol_mdfA |
| Definition | Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. |
| AMR Gene Family | major facilitator superfamily (MFS) antibiotic efflux pump |
| Drug Class | disinfecting agents and antiseptics, phenicol antibiotic, tetracycline antibiotic |
| Resistance Mechanism | antibiotic efflux |
| Efflux Component | efflux pump complex or subunit conferring antibiotic resistance |
| Resistomes with Sequence Variants | Citrobacter amalonaticusg+wgs, Citrobacter freundiig+p+wgs, Citrobacter koserig+wgs, Citrobacter portucalensisg+wgs, Citrobacter werkmaniig+wgs, Citrobacter youngaeg+wgs, Enterobacter hormaecheig+p+wgs, Enterobacter roggenkampiiwgs, Escherichia albertiig+wgs, Escherichia colig+p+wgs, Escherichia fergusoniig+wgs, Escherichia marmotaeg+wgs, Klebsiella oxytocap, Salmonella bongorig+wgs, Salmonella entericag+wgs, Shigella boydiig+wgs, Shigella dysenteriaeg+wgs, Shigella flexnerig+wgs, Shigella sonneig+wgs |
| Classification | 9 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + determinant of antibiotic resistance + antibiotic molecule + antibiotic efflux [Resistance Mechanism] + disinfecting agents and antiseptics [Drug Class] + phenicol antibiotic [Drug Class] + efflux pump complex or subunit conferring antibiotic resistance [Efflux Component] + tetracycline antibiotic [Drug Class] |
| Parent Term(s) | 5 ontology terms | Show + confers_resistance_to_antibiotic tetracycline [Antibiotic] + major facilitator superfamily (MFS) antibiotic efflux pump [AMR Gene Family] + confers_resistance_to_antibiotic chloramphenicol [Antibiotic] + confers_resistance_to_antibiotic thiamphenicol [Antibiotic] + confers_resistance_to_antibiotic benzalkonium chloride [Antibiotic] |
| Publications | Heng J, et al. 2015. Cell Res. 25(9):1060-73 Substrate-bound structure of the E. coli multidrug resistance transporter MdfA. (PMID 26238402) Bohn C, et al. 1998. J. Bacteriol. 180(22):6072-5 The Escherichia coli cmlA gene encodes the multidrug efflux pump Cmr/MdfA and is responsible for isopropyl-beta-D-thiogalactopyranoside exclusion and spectinomycin sensitivity. (PMID 9811673) Lewinson O, et al. 2003. Proc Natl Acad Sci U S A 100(4):1667-72 The Escherichia coli multidrug transporter MdfA catalyzes both electrogenic and electroneutral transport reactions. (PMID 12578981) |
Prevalence of Escherichia coli mdfA among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 414 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 | GRDI-AMR2 |
|---|---|---|---|---|---|
| Citrobacter amalonaticus | 100% | 0% | 96.36% | 0% | 0% |
| Citrobacter freundii | 92.62% | 0.31% | 93.23% | 0% | 0% |
| Citrobacter koseri | 100% | 0% | 100% | 0% | 0% |
| Citrobacter portucalensis | 100% | 0% | 99.1% | 0% | 0% |
| Citrobacter werkmanii | 100% | 0% | 100% | 0% | 0% |
| Citrobacter youngae | 100% | 0% | 93.75% | 0% | 0% |
| Enterobacter hormaechei | 1.08% | 0.06% | 0.86% | 0% | 0% |
| Enterobacter roggenkampii | 0% | 0% | 0.36% | 0% | 0% |
| Escherichia albertii | 97.14% | 0% | 98.06% | 0% | 0% |
| Escherichia coli | 66.72% | 0.01% | 98.08% | 0% | 99.69% |
| Escherichia fergusonii | 100% | 0% | 96.74% | 0% | 0% |
| Escherichia marmotae | 100% | 0% | 95.83% | 0% | 0% |
| Klebsiella oxytoca | 0% | 0.68% | 0% | 0% | 0% |
| Salmonella bongori | 16.67% | 0% | 26.32% | 0% | 0% |
| Salmonella enterica | 87.19% | 0% | 86.95% | 0% | 0% |
| Shigella boydii | 26.67% | 0% | 24.44% | 0% | 0% |
| Shigella dysenteriae | 21.43% | 0% | 33.33% | 0% | 0% |
| Shigella flexneri | 99% | 0% | 90.68% | 0% | 0% |
| Shigella sonnei | 2.44% | 0% | 4.75% | 0% | 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): 700
| Curator | Description | Most Recent Edit |
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