| Accession | ARO:3005052 |
| CARD Short Name | LpsA |
| Definition | LpsA plays a role in Lipooligosaccharide biosynthesis. LpsA confers resistance to polymyxin antibiotics. |
| AMR Gene Family | Intrinsic peptide antibiotic resistant Lps |
| Drug Class | peptide antibiotic |
| Resistance Mechanism | reduced permeability to antibiotic |
| Resistomes with Perfect Matches | Haemophilus influenzaeg+wgs |
| Resistomes with Sequence Variants | Haemophilus influenzaeg+wgs |
| Classification | 10 ontology terms | Show + process or component of antibiotic biology or chemistry + antibiotic molecule + peptide antibiotic [Drug Class] + mechanism of antibiotic resistance + reduced permeability to antibiotic [Resistance Mechanism] + lipopeptide antibiotic + determinant of antibiotic resistance + antibiotic mixture + protein modulating permeability to antibiotic + polymyxin antibiotic |
| Parent Term(s) | 3 ontology terms | Show + confers_resistance_to_antibiotic polymyxin B [Antibiotic] + confers_resistance_to_antibiotic defensin [Antibiotic] + Intrinsic peptide antibiotic resistant Lps [AMR Gene Family] |
| Publications | El-Sayed Ahmed MAE, et al. 2020. Emerg Microbes Infect 9(1):868-885 Colistin and its role in the Era of antibiotic resistance: an extended review (2000-2019). (PMID 32284036) Deadman ME, et al. 2006. J. Biol. Chem. 281(40):29455-67 Specific amino acids of the glycosyltransferase LpsA direct the addition of glucose or galactose to the terminal inner core heptose of Haemophilus influenzae lipopolysaccharide via alternative linkages. (PMID 16847057) Morey P, et al. 2013. Infect Immun 81(11):4100-11 Relative contributions of lipooligosaccharide inner and outer core modifications to nontypeable Haemophilus influenzae pathogenesis. (PMID 23980106) |
Prevalence of LpsA 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 |
|---|---|---|---|---|
| Haemophilus influenzae | 53.61% | 0% | 45.38% | 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): 500