vanR gene in vanI cluster

Accession ARO:3003728
Synonym(s)vanR-I vanRI
CARD Short NamevanR_in_vanI_cl
DefinitionAlso known as vanRI, is the regulatory transcriptional activator in the vanSR regulator within the vanI glycopeptide resistance gene cluster.
AMR Gene Familyglycopeptide resistance gene cluster, vanR
Drug Classglycopeptide antibiotic
Resistance Mechanismantibiotic target alteration
Classification14 ontology terms | Show
Parent Term(s)2 ontology terms | Show
+ vanR [AMR Gene Family]
+ part_of glycopeptide resistance gene cluster VanI
Publications

Kalan L, et al. 2009. Antimicrob. Agents Chemother. 53(7):2841-5 Noncanonical vancomycin resistance cluster from Desulfitobacterium hafniense Y51. (PMID 19414574)

Kruse T, et al. 2014. Microb Biotechnol 7(5):456-66 vanI: a novel D-Ala-D-Lac vancomycin resistance gene cluster found in Desulfitobacterium hafniense. (PMID 25042042)

Resistomes

Prevalence of vanR gene in vanI 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

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GIGRDI-AMR2
No prevalence data


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): 400


>gb|BAE85478.1|-|vanR gene in vanI cluster [Desulfitobacterium hafniense Y51]
MAANILIVDDEQAIADLVEVYLKNENYNLFKFYNGKDALDCIEKEKLDLAILDVMLPDVDGFSICRQIREKHNFPVIMLTAKEEEIDKIT
GLTLGADDYITKPFRPLELIARVKAQLRRFTKYNSAEPNQEEHVIAFSGLVLDMDTHECTLNEKKLSLTPTEFSILWVLCSNRGRVVSSE
ELFSEVWGDKYFTNSNNTVMVHIRHLREKMQDSAEHPKYIKTVWGVGYKIEK


>gb|AP008230.1|-|4201993-4202691|vanR gene in vanI cluster [Desulfitobacterium hafniense Y51]
TTGGCTGCTAATATTTTGATTGTTGATGATGAACAAGCTATTGCCGATTTGGTGGAAGTTTATCTGAAAAATGAGAACTATAATCTCTTT
AAATTTTATAACGGCAAGGATGCCCTTGACTGTATTGAAAAGGAAAAACTGGATCTCGCCATTTTGGATGTCATGCTCCCTGATGTAGAC
GGTTTTTCAATCTGCCGGCAAATCCGGGAAAAGCATAATTTTCCGGTGATCATGCTGACAGCCAAGGAAGAAGAAATCGATAAGATTACC
GGGCTGACCTTAGGCGCGGACGACTATATCACCAAGCCGTTCCGTCCCTTGGAGCTGATTGCCCGCGTCAAGGCGCAGCTGCGGAGATTT
ACCAAGTATAATTCTGCAGAGCCAAACCAAGAGGAACACGTGATTGCCTTTTCCGGCTTGGTCTTAGACATGGATACCCATGAATGTACC
TTGAATGAAAAAAAACTATCCCTCACGCCTACGGAGTTCTCCATTCTTTGGGTCCTTTGCTCCAACCGCGGCCGGGTAGTCAGTTCGGAA
GAATTGTTCAGTGAGGTATGGGGAGACAAGTATTTCACCAACAGCAATAATACGGTCATGGTGCATATCCGGCATTTAAGGGAAAAAATG
CAAGACAGCGCGGAACATCCTAAATATATCAAAACGGTATGGGGGGTTGGCTATAAAATTGAAAAGTGA

Curator Acknowledgements
Curator Description Most Recent Edit