| Accession | ARO:3005051 |
| CARD Short Name | LpsB |
| Definition | LpsB is involved in lipopolysaccharide synthesis. It confers intrinsic resistance to colistin and other peptide antibiotics. |
| AMR Gene Family | Intrinsic peptide antibiotic resistant Lps |
| Drug Class | peptide antibiotic |
| Resistance Mechanism | reduced permeability to antibiotic |
| Resistomes with Perfect Matches | Acinetobacter baumanniig+wgs |
| Resistomes with Sequence Variants | Acinetobacter baumanniig+p+wgs, Acinetobacter calcoaceticuswgs, Acinetobacter nosocomialisg+wgs, Acinetobacter pittiig+wgs, Klebsiella pneumoniaewgs |
| Classification | 10 ontology terms | Show + process or component of antibiotic biology or chemistry + antibiotic molecule + peptide antibiotic [Drug Class] + mechanism of antibiotic resistance + lipopeptide antibiotic + reduced permeability to antibiotic [Resistance Mechanism] + polymyxin antibiotic + determinant of antibiotic resistance + colistin + protein modulating permeability to antibiotic |
| Parent Term(s) | 4 ontology terms | Show + Intrinsic peptide antibiotic resistant Lps [AMR Gene Family] + confers_resistance_to_antibiotic colistin A [Antibiotic] + confers_resistance_to_antibiotic colistin B [Antibiotic] + confers_resistance_to_antibiotic defensin [Antibiotic] |
| Publications | Hood MI, et al. 2013. Infect. Immun. 81(2):542-51 genetic determinants of intrinsic colistin tolerance in Acinetobacter baumannii. (PMID 23230287) |
Prevalence of LpsB 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).
| Species | NCBI Chromosome | NCBI Plasmid | NCBI WGS | NCBI GI |
|---|---|---|---|---|
| Acinetobacter baumannii | 98.76% | 0.1% | 64.16% | 0% |
| Acinetobacter calcoaceticus | 0% | 0% | 4.35% | 0% |
| Acinetobacter nosocomialis | 100% | 0% | 73.56% | 0% |
| Acinetobacter pittii | 75.68% | 0% | 62.5% | 0% |
| Klebsiella pneumoniae | 0% | 0% | 0.01% | 0% |
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): 700