lnuF

Accession ARO:3002839
Synonym(s)linF
CARD Short NamelnuF
DefinitionlnuF is an integron-mediated nucleotidyltransferase found in Escherichia coli.
AMR Gene Familylincosamide nucleotidyltransferase (LNU)
Drug Classlincosamide antibiotic
Resistance Mechanismantibiotic inactivation
Resistomes with Sequence VariantsAcinetobacter indicusp, Escherichia coliwgs, Morganella morganiig+wgs+gi, Proteus mirabilisg+p+wgs+gi, Proteus vulgarisg+wgs, Providencia rettgerig+p+wgs+gi, Providencia stuartiig+gi
Classification8 ontology terms | Show
Parent Term(s)3 ontology terms | Show
+ lincosamide nucleotidyltransferase (LNU) [AMR Gene Family]
+ confers_resistance_to_antibiotic lincomycin [Antibiotic]
+ confers_resistance_to_antibiotic clindamycin [Antibiotic]
Publications

Heir E, et al. 2004. Ann. Clin. Microbiol. Antimicrob. 3:12 Prevalence and characterization of integrons in blood culture Enterobacteriaceae and gastrointestinal Escherichia coli in Norway and reporting of a novel class 1 integron-located lincosamide resistance gene. (PMID 15242512)

Resistomes

Prevalence of lnuF among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 413 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 GI
Acinetobacter indicus0%3.77%0%0%
Escherichia coli0%0%0.03%0%
Morganella morganii5.77%0%1.84%7.69%
Proteus mirabilis11.93%2.5%2.81%3.7%
Proteus vulgaris9.09%0%11.11%0%
Providencia rettgeri8.82%5.41%1.27%50%
Providencia stuartii6.25%0%0%33.33%
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): 550


>gb|CAD91132.1|+|lnuF [Escherichia coli]
MLQQKMIERFKEACHEDARIIAALMFGSFAIGEGDEFSDIEFAVFIQNNHFENFDQRSWLNAVSPVAAYFPDDFGHHTALFENGIRGEFH
FMRKSDIPVISTWQGYGWFPSLEEAVLLDRSGELSRYASALVGSPPKREGAPLVEGLVLNLISLMLFGANLLNRGEYARAWALLSKAHEN
LLKLVRLHEGATDHWPTPSRALEKDVSEDSYNRYLACTGSAEPKALCVAYHETWKWSLELFRSVAGPLNIELPRIVIAQTKRLLNESATP
HNK


>gb|AJ561197.2|+|1321-2142|lnuF [Escherichia coli]
ATGCTTCAGCAGAAAATGATCGAACGCTTCAAGGAAGCTTGCCATGAGGATGCACGAATAATCGCGGCGCTGATGTTCGGCTCATTTGCT
ATCGGAGAGGGTGACGAGTTCTCTGATATCGAATTTGCAGTGTTCATCCAGAATAATCATTTTGAAAATTTCGATCAGCGCTCGTGGCTT
AATGCTGTAAGTCCGGTTGCAGCTTACTTTCCGGATGACTTCGGCCACCACACCGCGCTTTTTGAAAACGGCATTCGCGGTGAATTCCAT
TTCATGCGAAAATCGGACATACCGGTCATTTCCACTTGGCAAGGCTACGGGTGGTTTCCCTCGCTTGAGGAGGCTGTTTTGTTGGACCGA
TCAGGAGAGTTGTCAAGGTACGCGAGTGCTCTCGTGGGCAGTCCCCCGAAACGTGAAGGCGCGCCGCTGGTGGAAGGACTTGTATTGAAC
CTCATCAGCCTGATGCTCTTTGGGGCAAATCTTTTAAATCGGGGAGAGTATGCTCGCGCCTGGGCTTTGCTCAGCAAAGCACATGAAAAC
TTACTCAAGTTGGTTCGCCTCCATGAAGGGGCAACAGACCACTGGCCGACACCTTCACGCGCGCTCGAAAAGGATGTCTCGGAGGACTCG
TATAATCGCTACCTGGCATGCACAGGCAGCGCGGAACCAAAAGCACTATGTGTAGCCTATCATGAAACGTGGAAGTGGAGTCTCGAATTG
TTCAGGAGTGTGGCTGGACCTCTGAATATCGAGCTTCCGAGAATTGTAATTGCGCAGACAAAAAGGTTGCTAAATGAATCTGCGACGCCG
CACAACAAGTAA