| Accession | ARO:3000589 |
| CARD Short Name | NDM-1 |
| Definition | NDM-1 is a metallo-beta-lactamase isolated from Klebsiella pneumoniae with nearly complete resistance to all beta-lactam antibiotics. |
| AMR Gene Family | NDM beta-lactamase |
| Drug Class | penam, cephamycin, carbapenem, cephalosporin |
| Resistance Mechanism | antibiotic inactivation |
| Resistomes with Perfect Matches | Acinetobacter baumanniig+p, Acinetobacter defluviig, Acinetobacter indicusg+p, Acinetobacter johnsoniig+p, Acinetobacter juniig+p, Acinetobacter pittiig+p, Acinetobacter wuhouensisg, Aeromonas caviaeg+p, Citrobacter freundiip, Citrobacter koserip, Citrobacter portucalensisp, Citrobacter youngaep, Enterobacter asburiaep, Enterobacter cloacaeg+p, Enterobacter hormaecheip, Enterobacter kobeip, Escherichia colig+p, Klebsiella aerogenesp, Klebsiella michiganensisp, Klebsiella pneumoniaeg+p, Klebsiella quasipneumoniaep, Morganella morganiig+p, Proteus mirabilisg+p, Proteus vulgarisp, Providencia rettgerig+p, Providencia stuartiig+p, Pseudomonas aeruginosag, Raoultella planticolap, Salmonella entericag+p, Serratia marcescensp, Shewanella putrefaciensp, Vibrio alginolyticusg, Vibrio fluvialisg |
| Resistomes with Sequence Variants | Acinetobacter baumanniig+p, Acinetobacter defluviig, Acinetobacter indicusg+p, Acinetobacter johnsoniig+p, Acinetobacter juniig+p, Acinetobacter pittiig+p, Acinetobacter wuhouensisg, Aeromonas caviaeg+p, Citrobacter freundiip, Citrobacter koserip, Citrobacter portucalensisp, Citrobacter youngaep, Enterobacter asburiaep, Enterobacter cloacaeg+p, Enterobacter hormaecheip, Enterobacter kobeip, Escherichia colig+p, Klebsiella aerogenesp, Klebsiella michiganensisp, Klebsiella pneumoniaeg+p, Klebsiella quasipneumoniaep, Morganella morganiig+p, Proteus mirabilisg+p, Proteus vulgarisp, Providencia rettgerig+p, Providencia stuartiig+p, Pseudomonas aeruginosag, Raoultella planticolap, Salmonella entericag+p, Serratia marcescensp, Shewanella putrefaciensp, Vibrio alginolyticusg, Vibrio fluvialisg |
| Classification | 17 ontology terms | Show + process or component of antibiotic biology or chemistry + mechanism of antibiotic resistance + determinant of antibiotic resistance + antibiotic inactivation [Resistance Mechanism] + hydrolysis of antibiotic conferring resistance + antibiotic molecule + antibiotic inactivation enzyme + beta-lactam antibiotic + hydrolysis of beta-lactam antibiotic by metallo-beta-lactamase + beta-lactamase + cephem + class B (metallo-) beta-lactamase + subclass B1 (metallo-) beta-lactamase + penam [Drug Class] + cephamycin [Drug Class] + carbapenem [Drug Class] + cephalosporin [Drug Class] |
| Parent Term(s) | 4 ontology terms | Show + NDM beta-lactamase [AMR Gene Family] + confers_resistance_to_antibiotic imipenem [Antibiotic] + confers_resistance_to_antibiotic meropenem [Antibiotic] + confers_resistance_to_antibiotic ertapenem [Antibiotic] |
| Sub-Term(s) | 19 ontology terms | Show + bispicen [Adjuvant] is_small_molecule_inhibitor + trispicen [Adjuvant] is_small_molecule_inhibitor + trispicenA [Adjuvant] is_small_molecule_inhibitor + risedronate [Adjuvant] is_small_molecule_inhibitor + aspergillomarasmine A [Adjuvant] is_small_molecule_inhibitor + emerione A [Adjuvant] is_small_molecule_inhibitor + fisetin [Adjuvant] is_small_molecule_inhibitor + methotrexate [Adjuvant] is_small_molecule_inhibitor + unithiol [Adjuvant] is_small_molecule_inhibitor + methimazole [Adjuvant] is_small_molecule_inhibitor + lipoic acid [Adjuvant] is_small_molecule_inhibitor + ANT-431 [Adjuvant] is_small_molecule_inhibitor + L-captopril [Adjuvant] is_small_molecule_inhibitor + D-captopril [Adjuvant] is_small_molecule_inhibitor + thiorphan [Adjuvant] is_small_molecule_inhibitor + tiopronin [Adjuvant] is_small_molecule_inhibitor + dimercaprol [Adjuvant] is_small_molecule_inhibitor + ME1071 [Adjuvant] is_small_molecule_inhibitor + L-CS319 [Adjuvant] is_small_molecule_inhibitor |
| Publications | Zhang H and Hao Q. 2011. FASEB J 25(8): 2574-2582. Crystal structure of NDM-1 reveals a common {beta}-lactam hydrolysis mechanism. (PMID 21507902) King D and Strynadka N. 2011. Protein Sci 20(9): 1484-1491. Crystal structure of New Delhi metallo-beta-lactamase reveals molecular basis for antibiotic resistance. (PMID 21774017) Yong D, et al. 2009. Antimicrob Agents Chemother 53(12): 5046-5054. Characterization of a new metallo-beta-lactamase gene, bla(NDM-1), and a novel erythromycin esterase gene carried on a unique genetic structure in Klebsiella pneumoniae sequence type 14 from India. (PMID 19770275) Khalil MA, et al. 2016. Microb. Drug Resist. : Emergence of Multidrug-Resistant New Delhi Metallo-β-Lactamase-1-Producing Klebsiella pneumoniae in Egypt. (PMID 27575913) Dortet L, et al. 2014. Biomed Res Int 2014:249856 Worldwide dissemination of the NDM-type carbapenemases in Gram-negative bacteria. (PMID 24790993) Ali A, et al. 2018. Int. J. Biol. Macromol. 112:1272-1277 Non-active site mutation (Q123A) in New Delhi metallo-β-lactamase (NDM-1) enhanced its enzyme activity. (PMID 29454953) |
Prevalence of NDM-1 among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 381 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 | 5.31% | 0.57% | 0% | 0% |
| Acinetobacter defluvii | 100% | 0% | 0% | 0% |
| Acinetobacter indicus | 4.76% | 5.66% | 0% | 0% |
| Acinetobacter johnsonii | 5.26% | 2.78% | 0% | 0% |
| Acinetobacter junii | 9.09% | 33.33% | 0% | 0% |
| Acinetobacter pittii | 8.11% | 1.48% | 0% | 0% |
| Acinetobacter wuhouensis | 100% | 0% | 0% | 0% |
| Aeromonas caviae | 4.55% | 2.6% | 0% | 0% |
| Citrobacter freundii | 0% | 2.46% | 0% | 0% |
| Citrobacter koseri | 0% | 5% | 0% | 0% |
| Citrobacter portucalensis | 0% | 2.94% | 0% | 0% |
| Citrobacter youngae | 0% | 9.09% | 0% | 0% |
| Enterobacter asburiae | 0% | 0.28% | 0% | 0% |
| Enterobacter cloacae | 1.79% | 1.68% | 0% | 0% |
| Enterobacter hormaechei | 0% | 2.06% | 0% | 0% |
| Enterobacter kobei | 0% | 1.38% | 0% | 0% |
| Escherichia coli | 0.1% | 0.34% | 0% | 0% |
| Klebsiella aerogenes | 0% | 1.09% | 0% | 0% |
| Klebsiella michiganensis | 0% | 4.57% | 0% | 0% |
| Klebsiella pneumoniae | 0.41% | 1.88% | 0% | 0% |
| Klebsiella quasipneumoniae | 0% | 1.69% | 0% | 0% |
| Morganella morganii | 3.85% | 2.5% | 0% | 0% |
| Proteus mirabilis | 10.09% | 7.5% | 0% | 0% |
| Proteus vulgaris | 0% | 11.11% | 0% | 0% |
| Providencia rettgeri | 2.94% | 8.11% | 0% | 0% |
| Providencia stuartii | 6.25% | 11.36% | 0% | 0% |
| Pseudomonas aeruginosa | 2.76% | 0% | 0% | 0% |
| Raoultella planticola | 0% | 2.33% | 0% | 0% |
| Salmonella enterica | 0.06% | 0.16% | 0% | 0% |
| Serratia marcescens | 0% | 2.58% | 0% | 0% |
| Shewanella putrefaciens | 0% | 20% | 0% | 0% |
| Vibrio alginolyticus | 1.23% | 0% | 0% | 0% |
| Vibrio fluvialis | 2.63% | 0% | 0% | 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
