npmA

Accession ARO:3002665
DefinitionNpmA is a plasmid-mediated aminoglycoside-resistance 16S rRNA methyltransferase by interfering with aminoglycoside binding with the A site of 16S rRNA through N-1 methylation at position A1408.
AMR Gene Family16S rRNA methyltransferase (A1408)
Drug Classaminoglycoside antibiotic
Resistance Mechanismantibiotic target alteration
Classification11 ontology terms | Show
Parent Term(s)1 ontology terms | Show
Publications

Wachino J, et al. 2007. Antimicrob Agents Chemother 51(12): 4401-4409. Novel plasmid-mediated 16S rRNA m1A1408 methyltransferase, NpmA, found in a clinically isolated Escherichia coli strain resistant to structurally diverse aminoglycosides. (PMID 17875999)

Resistomes

Prevalence of npmA among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI for 85 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 (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGS
Clostridioides difficile0%0%0.1%
Show Perfect Only


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): 400


>gb|BAF80809.1|+|npmA [Escherichia coli]
MLILKGTKTVDLSKDELTEIIGQFDRVHIDLGTGDGRNIYKLAINDQNTFYIGIDPVKENLFDISKKIIKKPSKGGLSNVVFVIAAAESL
PFELKNIADSISILFPWGTLLEYVIKPNRDILSNVADLAKKEAHFEFVTTYSDSYEEAEIKKRGLPLLSKAYFLSEQYKAELSNSGFRID
DVKELDNEYVKQFNSLWAKRLAFGRKRSFFRVSGHVSKH


>gb|AB261016|+|3069-3728|npmA [Escherichia coli]
TTGTTAATACTCAAAGGAACAAAGACGGTTGATTTATCAAAAGATGAATTGACAGAAATAATAGGTCAGTTTGATCGTGTGCATATAGAT
TTGGGTACTGGAGACGGTAGAAATATATATAAACTTGCAATTAATGATCAAAACACTTTCTATATCGGAATAGATCCGGTAAAAGAAAAC
TTGTTTGATATATCCAAAAAAATTATAAAGAAGCCCTCAAAAGGAGGGCTATCTAATGTGGTGTTTGTTATTGCAGCTGCAGAGTCTCTC
CCTTTTGAATTGAAAAACATTGCTGATTCAATTTCCATTTTGTTTCCTTGGGGGACATTGCTTGAATATGTAATTAAACCGAATAGAGAT
ATTCTTTCGAATGTTGCAGATTTGGCTAAAAAAGAAGCTCACTTTGAATTTGTGACCACATACTCAGATTCATACGAAGAAGCGGAAATA
AAAAAAAGAGGACTTCCTCTTTTAAGTAAGGCCTATTTTTTGAGCGAACAATACAAAGCTGAATTATCAAACTCAGGTTTTCGCATTGAT
GATGTTAAGGAATTGGACAATGAGTATGTAAAACAGTTTAATTCTCTTTGGGCAAAGCGATTAGCTTTTGGGCGAAAACGTTCTTTCTTT
CGAGTTTCTGGCCATGTTTCAAAACATTAA