cipA

Accession ARO:3003907
CARD Short NamecipA
DefinitionCfr-like methyltransferase enzyme conferring resistance to multiple clinically relevant antibiotic classes.
AMR Gene FamilyCfr 23S ribosomal RNA methyltransferase
Drug Classphenicol antibiotic, oxazolidinone antibiotic, streptogramin antibiotic, lincosamide antibiotic, pleuromutilin antibiotic, streptogramin A antibiotic
Resistance Mechanismantibiotic target alteration
Classification17 ontology terms | Show
Parent Term(s)11 ontology terms | Show
+ confers_resistance_to_antibiotic lincomycin [Antibiotic]
+ confers_resistance_to_antibiotic clindamycin [Antibiotic]
+ confers_resistance_to_antibiotic azidamfenicol [Antibiotic]
+ confers_resistance_to_antibiotic chloramphenicol [Antibiotic]
+ confers_resistance_to_antibiotic thiamphenicol [Antibiotic]
+ confers_resistance_to_antibiotic virginiamycin M1 [Antibiotic]
+ confers_resistance_to_antibiotic tiamulin [Antibiotic]
+ confers_resistance_to_antibiotic madumycin II [Antibiotic]
+ confers_resistance_to_antibiotic griseoviridin [Antibiotic]
+ confers_resistance_to_antibiotic dalfopristin [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 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): 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

Curator Acknowledgements
Curator Description Most Recent Edit