| Accession | ARO:3005021 |
| CARD Short Name | cfr(D) |
| Definition | cfr(D) is found in Enterococcus faecium. It confers resistance to vancomycin, teicoplanin, and linezolid. |
| AMR Gene Family | Cfr 23S ribosomal RNA methyltransferase |
| Drug Class | phenicol antibiotic, oxazolidinone antibiotic, streptogramin antibiotic, lincosamide antibiotic, glycopeptide antibiotic |
| Resistance Mechanism | antibiotic target alteration |
| Resistomes with Perfect Matches | Enterococcus faecalisp+wgs, Enterococcus faeciump+wgs, Streptococcus gallolyticusp |
| Resistomes with Sequence Variants | Enterococcus faecalisp+wgs, Enterococcus faeciump+wgs, Streptococcus gallolyticusp |
| Classification | 16 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + determinant of antibiotic resistance + antibiotic target alteration [Resistance Mechanism] + antibiotic target modifying enzyme + ribosomal alteration conferring antibiotic resistance + rRNA methyltransferase conferring antibiotic resistance + 23S ribosomal RNA methyltransferase + antibiotic molecule + S-adenosylmethionine (SAM) superfamily + phenicol antibiotic [Drug Class] + oxazolidinone antibiotic [Drug Class] + streptogramin antibiotic [Drug Class] + lincosamide antibiotic [Drug Class] + Cfr 23S ribosomal RNA methyltransferase [AMR Gene Family] + glycopeptide antibiotic [Drug Class] |
| Parent Term(s) | 4 ontology terms | Show + confers_resistance_to_antibiotic vancomycin [Antibiotic] + confers_resistance_to_antibiotic teicoplanin [Antibiotic] + confers_resistance_to_antibiotic linezolid [Antibiotic] + cfr(D) Group |
| Publications | Stojković V, et al. 2019. Antimicrob. Agents Chemother. 64(1): cfr(B), cfr(C), and a New cfr-Like Gene, cfr(E), in Clostridium difficile Strains Recovered across Latin America. (PMID 31685464) Guerin F, et al. 2020. J. Antimicrob. Chemother. : Molecular and functional analysis of the novel cfr(D) linezolid resistance gene identified in Enterococcus faecium. (PMID 32277823) |
Prevalence of cfr(D) 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 |
|---|---|---|---|---|
| Enterococcus faecalis | 0% | 3.69% | 0.33% | 0% |
| Enterococcus faecium | 0% | 0.45% | 1.66% | 0% |
| Streptococcus gallolyticus | 0% | 50% | 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