| Accession | ARO:3000567 |
| Synonym(s) | tet40 |
| CARD Short Name | tet(40) |
| Definition | Tet40 is a tetracycline efflux pump found in the Gram-positive Clostridium. It is similar to tetA(P). |
| AMR Gene Family | major facilitator superfamily (MFS) antibiotic efflux pump |
| Drug Class | tetracycline antibiotic |
| Resistance Mechanism | antibiotic efflux |
| Efflux Component | efflux pump complex or subunit conferring antibiotic resistance |
| Resistomes with Sequence Variants | Anaerostipes hadruswgs, Clostridioides difficilegi, Enterocloster clostridioformiswgs, Enterococcus faeciumwgs, Faecalibacterium prausnitziig+wgs, Fusobacterium necrophorumwgs, Roseburia hominiswgs, Ruthenibacterium lactatiformanswgs, Streptococcus equiwgs, Streptococcus suisg+wgs |
| Classification | 7 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] + efflux pump complex or subunit conferring antibiotic resistance [Efflux Component] + tetracycline antibiotic [Drug Class] |
| Parent Term(s) | 2 ontology terms | Show + confers_resistance_to_antibiotic tetracycline [Antibiotic] + major facilitator superfamily (MFS) antibiotic efflux pump [AMR Gene Family] |
| Publications | Kazimierczak KA, et al. 2008. Antimicrob Agents Chemother 52(11): 4001-4009. A new tetracycline efflux gene, tet(40), is located in tandem with tet(O/32/O) in a human gut firmicute bacterium and in metagenomic library clones. (PMID 18779355) |
Prevalence of tet(40) 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 |
|---|---|---|---|---|
| Anaerostipes hadrus | 0% | 0% | 3.45% | 0% |
| Clostridioides difficile | 0% | 0% | 0% | 8.33% |
| Enterocloster clostridioformis | 0% | 0% | 16.28% | 0% |
| Enterococcus faecium | 0% | 0% | 0.07% | 0% |
| Faecalibacterium prausnitzii | 6.67% | 0% | 6.8% | 0% |
| Fusobacterium necrophorum | 0% | 0% | 4.65% | 0% |
| Roseburia hominis | 0% | 0% | 22.22% | 0% |
| Ruthenibacterium lactatiformans | 0% | 0% | 3.33% | 0% |
| Streptococcus equi | 0% | 0% | 0.23% | 0% |
| Streptococcus suis | 7.2% | 0% | 3.99% | 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): 750