cipA

Accession ARO:3003907
DefinitionCfr-like methyltransferase enzyme conferring resistance to multiple clinically relevant antibiotic classes.
AMR Gene FamilyCfr 23S ribosomal RNA methyltransferase
Drug Classoxazolidinone antibiotic, macrolide antibiotic, phenicol antibiotic, lincosamide antibiotic, streptogramin antibiotic, pleuromutilin antibiotic
Resistance Mechanismantibiotic target alteration
Classification24 ontology terms | Show
Parent Term(s)11 ontology terms | Show
+ confers_resistance_to_antibiotic clindamycin [Antibiotic]
+ confers_resistance_to_antibiotic lincomycin [Antibiotic]
+ confers_resistance_to_antibiotic chloramphenicol [Antibiotic]
+ confers_resistance_to_antibiotic tiamulin [Antibiotic]
+ confers_resistance_to_antibiotic dalfopristin [Antibiotic]
+ confers_resistance_to_antibiotic griseoviridin [Antibiotic]
+ confers_resistance_to_antibiotic pristinamycin IIA [Antibiotic]
+ confers_resistance_to_antibiotic madumycin II [Antibiotic]
+ confers_resistance_to_antibiotic azidamfenicol [Antibiotic]
+ confers_resistance_to_antibiotic thiamphenicol [Antibiotic]
+ cfr(B) Group
Publications

Atkinson GC, et al. 2013. Antimicrob Agents Chemother 57(8): 4019-4026. Distinction between the Cfr methyltransferase conferring antibiotic resistance and the housekeeping RlmN methyltransferase. (PMID 23752511)

Resistomes

Prevalence of cipA among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI for 82 important pathogens (see methodological details and complete list of analyzed pathogens). Values reflect percentage of genomes, plasmids, 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 WGS
No prevalence data


Detection Models

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): 600


>gb|ACX65640.1|-|cipA [Paenibacillus sp. Y412MC10]
MKYLSKYEKIRKILSALNQPNYRYSQITEAIFKNKIGNFEAMNNLPKPVRNELIKELGNNVLSITPKMEQKSNQVSKILFAIPGDEYIES
VRLSYQTGWESYCISSQCGCGFGCTFCATGTLGLKRNLTTDEITDQLLYFTLNNHPLDSVSFMGMGEALANPYVFDALHLLTDPKLFGLG
HRRITVSTIGLLPGVKKLTKEFPQINLTFSLHSPFHDQRSELMPINNHFPLEEVMTVLDEHIQQTKRKVYIAYILLRGINDSTKHAKAVA
DLLRERGSWEHLYHVNLIPYNSTDATSQSFVESDQNSINMFLRILKSKGIHVTVRTQFGSDINAACGQLYGSNGNI


>gb|CP001793.1|-|3931127-3932167|cipA [Paenibacillus sp. Y412MC10]
ATGAAGTATTTATCTAAGTATGAAAAAATACGTAAGATCTTATCGGCTCTAAATCAACCGAATTATAGATATTCGCAAATAACAGAGGCA
ATCTTCAAGAACAAGATCGGAAATTTCGAAGCAATGAACAACTTGCCTAAGCCTGTAAGAAATGAATTAATCAAAGAGCTTGGAAACAAT
GTGTTAAGCATCACACCGAAAATGGAGCAGAAATCCAACCAAGTTAGCAAAATTCTGTTTGCTATCCCAGGCGATGAATACATTGAATCC
GTAAGGTTAAGTTATCAAACGGGCTGGGAATCCTATTGTATCTCTTCGCAGTGCGGTTGCGGATTTGGTTGTACATTTTGCGCTACGGGA
ACACTCGGTTTGAAGAGGAATCTTACAACGGATGAAATAACGGATCAACTGCTTTATTTTACTTTGAATAACCATCCCTTGGACAGTGTG
TCTTTTATGGGAATGGGAGAGGCACTTGCAAATCCATATGTATTTGATGCTTTGCATTTGCTGACGGATCCTAAACTTTTCGGTTTAGGA
CATCGAAGGATTACGGTTTCTACCATAGGTTTATTACCTGGAGTAAAAAAGTTGACGAAGGAATTTCCACAGATTAATTTAACGTTCTCG
CTTCATTCACCATTTCATGATCAGAGAAGCGAGTTAATGCCCATTAACAATCATTTTCCATTAGAAGAAGTTATGACCGTGTTGGACGAG
CATATTCAGCAAACAAAGCGAAAGGTTTACATTGCTTATATCCTGCTAAGGGGTATCAACGATTCAACTAAACATGCTAAAGCCGTTGCT
GATTTGTTGCGTGAAAGAGGGTCGTGGGAACATTTATATCACGTCAATCTAATTCCATACAATTCCACTGATGCCACATCACAAAGTTTT
GTAGAGTCGGATCAGAACAGCATCAATATGTTCCTTAGAATCTTGAAGTCAAAGGGAATCCATGTCACCGTGAGGACCCAATTCGGATCA
GACATCAACGCAGCATGCGGTCAACTATATGGATCAAACGGTAACATTTAA