| Accession | ARO:3004128 |
| CARD Short Name | Smar_Omp1 |
| Definition | Omp1 is an outer membrane porin that confers resistance by absence in S. marcescens. Knockout, deletion or other inhibition of the omp1 gene confers resistance to certain beta-lactamase antibiotics - including Cefoxitin, Ceftriaxone, Cefotaxime, and Moxalactam - as well as Ciprofloxacin, Tetracycline, and Chloramphenicol, by preventing passage of the antibiotic into the cell. |
| AMR Gene Family | General Bacterial Porin with reduced permeability to beta-lactams |
| Drug Class | cephalosporin, fluoroquinolone antibiotic, phenicol antibiotic, monobactam, tetracycline antibiotic, penam, cephamycin, carbapenem, penem |
| Resistance Mechanism | reduced permeability to antibiotic, resistance by absence |
| Classification | 19 ontology terms | Show + process or component of antibiotic biology or chemistry + antibiotic molecule + mechanism of antibiotic resistance + beta-lactam antibiotic + determinant of antibiotic resistance + reduced permeability to antibiotic [Resistance Mechanism] + cephem + protein modulating permeability to antibiotic + General Bacterial Porin (GBP) + cephalosporin [Drug Class] + fluoroquinolone antibiotic [Drug Class] + phenicol antibiotic [Drug Class] + monobactam [Drug Class] + resistance by absence [Resistance Mechanism] + tetracycline antibiotic [Drug Class] + penam [Drug Class] + cephamycin [Drug Class] + carbapenem [Drug Class] + penem [Drug Class] |
| Parent Term(s) | 9 ontology terms | Show + gene conferring resistance via absence + confers_resistance_to_antibiotic cefoxitin [Antibiotic] + confers_resistance_to_antibiotic ceftriaxone [Antibiotic] + confers_resistance_to_antibiotic cefotaxime [Antibiotic] + confers_resistance_to_antibiotic moxalactam [Antibiotic] + confers_resistance_to_antibiotic ciprofloxacin [Antibiotic] + confers_resistance_to_antibiotic tetracycline [Antibiotic] + confers_resistance_to_antibiotic chloramphenicol [Antibiotic] + General Bacterial Porin with reduced permeability to beta-lactams [AMR Gene Family] |
| Publications | Sánchez L, et al. 1997. Microbiologia 13(3):315-20 The role of outer membrane in Serratia marcescens intrinsic resistance to antibiotics. (PMID 9353750) Li P, et al. 2015. PLoS ONE 10(4):e0123061 Comparative genome analyses of Serratia marcescens FS14 reveals its high antagonistic potential. (PMID 25856195) |
Prevalence of Serratia marcescens Omp1 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 |
|---|---|---|---|---|
| No prevalence data | ||||
Model Type: protein knockout model
Model Definition: Protein Knockout Models (PKM) reflect resistance by the absence of a gene product, most often deletion of a gene involved in antibiotic import, such as Vibrio cholerae OmpT. Like Protein Homolog Models (PHMs), PKMs include a reference sequence and a bitscore cut-off for detection using BLASTP but instead are designed to only report lack of detection under Perfect or Strict criteria. 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. This model type is still under development and not currently supported by the Resistance Gene Identifier (RGI) software.
Bit-score Cut-off (blastP): 700