vanS gene in vanM cluster

Accession ARO:3002939
Synonym(s)vanS-M vanSM
CARD Short NamevanS_in_vanM_cl
DefinitionAlso known as vanSM, is a vanS variant found in the vanM gene cluster.
AMR Gene Familyglycopeptide resistance gene cluster, vanS
Drug Classglycopeptide antibiotic
Resistance Mechanismantibiotic target alteration
Resistomes with Perfect MatchesEnterococcus faeciumg+p+wgs+gi
Resistomes with Sequence VariantsEnterococcus faeciumg+p+wgs+gi
Classification14 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ vanS [AMR Gene Family]
+ part_of glycopeptide resistance gene cluster VanM
Publications

Xu X, et al. 2010. Antimicrob Agents Chemother 54(11): 4643-4647. vanM, a new glycopeptide resistance gene cluster found in Enterococcus faecium. (PMID 20733041)

Resistomes

Prevalence of vanS gene in vanM cluster 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).

Prevalence: protein homolog model (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GIGRDI-AMR2
Enterococcus faecium0.32%0.26%0.27%1.96%0%
Show Perfect Only


Detection Models

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


>gb|ACL82958.1|+|vanS gene in vanM cluster [Enterococcus faecium]
MAKMRSSFRTKIILLFAVSMLLAGMVTYLLFKGLQLYYHTMIHRGNPLAELRDFIESIGDFNFFFLLFILLSLSVFYILTKPYSAYFDEI
STGIQYLALGDFKRRVNIQSNDEFGDIAQAINQASEKLEEAIQRGDFSENSKEQLVVNLAHDLRTPLTSVLGYLDLVLKDEKLTKEQVRH
FLTIAFTKSQRLEKLIDELFEITRMNYGMLSIEKKPINLTDLLLQLKEELYPIFEKNGLTARMNTLPHLPVSADGEMLARVFENLLTNAN
RYGHDGQFVDINGFVDEEEVVVQVVNYGDSIPPNELPYLFDMFYTGDKARTHKEDSTGLGLFIAKNIVEQHNGTVTAESSLIRTVFEVRL
PLESAPIDQV


>gb|FJ349556.1|+|1673-2785|vanS gene in vanM cluster [Enterococcus faecium]
ATGGCTAAAATGAGAAGCAGTTTTCGCACCAAAATCATCTTGTTATTTGCTGTAAGCATGCTTCTGGCTGGTATGGTAACTTACTTACTT
TTTAAAGGACTACAGCTTTATTATCATACTATGATTCATCGTGGTAACCCATTAGCCGAACTTCGCGATTTCATAGAGAGTATTGGAGAC
TTTAACTTCTTTTTCCTATTATTTATCTTACTGTCGCTGTCGGTTTTCTATATACTCACTAAGCCCTATTCTGCTTATTTCGATGAAATA
TCAACCGGAATTCAATACCTCGCACTTGGCGACTTTAAACGCCGGGTTAATATCCAATCAAATGATGAATTTGGGGATATTGCTCAAGCT
ATTAATCAGGCAAGTGAAAAATTAGAAGAAGCCATACAAAGAGGTGATTTTTCAGAAAACAGCAAAGAACAATTAGTTGTAAATTTGGCT
CATGATTTGCGTACGCCGCTAACTTCTGTTTTAGGTTATTTAGATTTAGTTCTTAAGGATGAGAAGTTGACAAAAGAACAAGTCAGGCAT
TTTTTAACGATCGCCTTTACGAAATCACAGCGTTTAGAAAAACTGATTGATGAATTATTCGAAATCACGAGAATGAACTATGGCATGCTA
TCAATTGAAAAAAAGCCAATTAATTTAACTGATCTGCTTCTTCAATTGAAAGAAGAATTGTATCCGATTTTCGAGAAAAACGGTTTGACC
GCTCGAATGAATACACTGCCTCATTTACCTGTTTCGGCTGATGGAGAGATGTTGGCTCGAGTGTTTGAAAATCTGTTGACCAATGCCAAT
CGTTACGGACATGACGGTCAGTTTGTAGATATTAATGGGTTTGTTGATGAAGAAGAAGTGGTTGTTCAAGTTGTGAATTATGGAGATAGC
ATTCCTCCGAACGAACTTCCGTATCTTTTTGATATGTTCTATACCGGTGATAAAGCACGAACCCATAAAGAGGATAGCACTGGTCTTGGA
CTATTTATTGCGAAGAATATTGTGGAACAGCATAATGGAACGGTTACGGCTGAAAGCAGTCTAATACGTACGGTATTTGAAGTTCGTTTA
CCGCTGGAAAGTGCTCCTATTGACCAAGTTTAA

Curator Acknowledgements
Curator Description Most Recent Edit