| Accession | ARO:3003028 |
| CARD Short Name | lmrA |
| Definition | lmrA is the repressor to the lmrAB operon in Bacillus subtilis. lmrA mutations result in lincomycin resistance. |
| AMR Gene Family | ATP-binding cassette (ABC) antibiotic efflux pump |
| Drug Class | nucleoside antibiotic, lincosamide antibiotic |
| Resistance Mechanism | antibiotic efflux, antibiotic target alteration |
| Efflux Component | efflux pump complex or subunit conferring antibiotic resistance |
| Efflux Regulator | protein(s) and two-component regulatory system modulating antibiotic efflux |
| Classification | 15 ontology terms | Show + process or component of antibiotic biology or chemistry + antibiotic molecule + mechanism of antibiotic resistance + nucleoside antibiotic [Drug Class] + determinant of antibiotic resistance + antibiotic efflux [Resistance Mechanism] + antibiotic target alteration [Resistance Mechanism] + mutation conferring antibiotic resistance + efflux pump complex or subunit conferring antibiotic resistance [Efflux Component] + aminonucleoside antibiotic + lincosamide antibiotic [Drug Class] + ATP-binding cassette (ABC) antibiotic efflux pump [AMR Gene Family] + puromycin [Antibiotic] + lincomycin [Antibiotic] + antibiotic resistant gene variant or mutant |
| Parent Term(s) | 3 ontology terms | Show |
| Publications | Yoshida K, et al. 2004. J Bacteriol 186(17): 5640-5648. Bacillus subtilis LmrA is a repressor of the lmrAB and yxaGH operons: identification of its binding site and functional analysis of lmrB and yxaGH. (PMID 15317768) Kunst F, et al. 1997. Nature 390(6657): 249-256. The complete genome sequence of the gram-positive bacterium Bacillus subtilis. (PMID 9384377) |
Prevalence of lmrA 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 |
|---|---|---|---|---|---|
| No prevalence data | |||||
Model Type: protein variant model
Model Definition: Protein Variant Models (PVM) perform a similar search as Protein Homolog Models (PHM), i.e. detect protein sequences based on their similarity to a curated reference sequence, but secondarily screen query sequences for curated sets of mutations to differentiate them from antibiotic susceptible wild-type alleles. PVMs are designed to detect AMR acquired via mutation of house-keeping genes or antibiotic targets, e.g. a mutated gyrase resistant to aminocoumarin antibiotics. PVMs include a protein reference sequence (often from antibiotic susceptible wild-type alleles), a curated bit-score cut-off, and mapped resistance variants. Mapped resistance variants may include any or all of single point mutations, insertions, or deletions curated from the scientific literature. A Strict RGI match has a BLASTP bit-score above the curated BLASTP cutoff value and contains at least one curated mutation from amongst the mapped resistance variants, while a Loose RGI match has a bit-score less than the curated BLASTP bit-score cut-off but still contains at least one curated mutation from amongst the mapped resistance variants.
Bit-score Cut-off (blastP): 900
PubMed: mutation data hand curated from the scientific literature, evaluated as conferring resistance (R). CRyPTIC: mutation data acquired from the CRyPTIC catalog, evaluated as resistant (R), susceptible (S), or undetermined (U). ReSeqTB: mutation data acquired from the ReSeqTB catalog, evaluated as conferring resistance (Minimal, Moderate, High), not conferring resistance (None), or Indeterminate. WHO: mutation data acquired from the WHO 2023 catalog, evaluated as resistant (R), susceptible (S), or undetermined (U).| Mutation | Mutation type | PubMed |
|---|---|---|
| Q52P | single resistance variant | PMID:15317768 |
| Curator | Description | Most Recent Edit |
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