| Accession | ARO:3003578 |
| Synonym(s) | arnC |
| CARD Short Name | PmrF |
| Definition | PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A, which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. |
| AMR Gene Family | pmr phosphoethanolamine transferase |
| Drug Class | peptide antibiotic |
| Resistance Mechanism | antibiotic target alteration |
| Resistomes with Perfect Matches | Escherichia colig+p+wgs, Escherichia fergusoniiwgs, Shigella boydiig+wgs, Shigella flexnerig+wgs, Shigella sonneiwgs |
| Resistomes with Sequence Variants | Acinetobacter baumanniiwgs, Citrobacter amalonaticusg+wgs, Citrobacter freundiig+p+wgs, Citrobacter portucalensisg+wgs, Citrobacter werkmaniig+wgs, Citrobacter youngaeg+wgs, Enterobacter cloacaewgs, Enterobacter hormaecheig+wgs, Enterococcus faeciumwgs, Escherichia albertiig+wgs, Escherichia colig+p+wgs, Escherichia fergusoniig+wgs, Escherichia marmotaeg+wgs, Klebsiella pneumoniaewgs, Mycobacterium aviumwgs, Raoultella planticolawgs, Salmonella entericag+wgs, Serratia marcescenswgs, Shigella boydiig+wgs, Shigella dysenteriaeg+wgs, Shigella flexnerig+wgs, Shigella sonneig+wgs, Vibrio choleraewgs |
| Classification | 10 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + antibiotic target alteration [Resistance Mechanism] + determinant of antibiotic resistance + charge alteration conferring antibiotic resistance + gene altering cell wall charge + antibiotic molecule + phosphoethanolamine transferase conferring colistin resistance + peptide antibiotic [Drug Class] + pmr phosphoethanolamine transferase [AMR Gene Family] |
| Parent Term(s) | 2 ontology terms | Show |
| Sub-Term(s) | 1 ontology terms | Show + basRS regulates |
| Publications | Gunn JS, et al. 1998. Mol Microbiol 27(6): 1171-1182. PmrA-PmrB-regulated genes necessary for 4-aminoarabinose lipid A modification and polymyxin resistance. (PMID 9570402) |
Prevalence of PmrF 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 |
|---|---|---|---|---|
| Acinetobacter baumannii | 0% | 0% | 0.04% | 0% |
| Citrobacter amalonaticus | 100% | 0% | 87.5% | 0% |
| Citrobacter freundii | 99.23% | 0.26% | 59.75% | 0% |
| Citrobacter portucalensis | 100% | 0% | 86% | 0% |
| Citrobacter werkmanii | 100% | 0% | 100% | 0% |
| Citrobacter youngae | 100% | 0% | 100% | 0% |
| Enterobacter cloacae | 0% | 0% | 1.36% | 0% |
| Enterobacter hormaechei | 14.88% | 0% | 11.33% | 0% |
| Enterococcus faecium | 0% | 0% | 0.04% | 0% |
| Escherichia albertii | 100% | 0% | 96.55% | 0% |
| Escherichia coli | 61.32% | 0.04% | 74.56% | 0% |
| Escherichia fergusonii | 100% | 0% | 41.54% | 0% |
| Escherichia marmotae | 100% | 0% | 69.05% | 0% |
| Klebsiella pneumoniae | 0% | 0% | 0.11% | 0% |
| Mycobacterium avium | 0% | 0% | 0.48% | 0% |
| Raoultella planticola | 0% | 0% | 2.94% | 0% |
| Salmonella enterica | 93.61% | 0% | 87.46% | 0% |
| Serratia marcescens | 0% | 0% | 0.15% | 0% |
| Shigella boydii | 57.14% | 0% | 59.14% | 0% |
| Shigella dysenteriae | 90.91% | 0% | 100% | 0% |
| Shigella flexneri | 100% | 0% | 83.5% | 0% |
| Shigella sonnei | 100% | 0% | 93.56% | 0% |
| Vibrio cholerae | 0% | 0% | 0.07% | 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): 550