Escherichia coli EF-Tu mutants conferring resistance to Pulvomycin

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Accession ARO:3003369
CARD Short NameEcol_EFTu_PLV
DefinitionSequence variants of Escherichia coli elongation factor Tu that confer resistance to Pulvomycin.
AMR Gene Familyelfamycin resistant EF-Tu
Drug Classelfamycin antibiotic
Resistance Mechanismantibiotic target alteration
Resistomes with Sequence VariantsActinobacillus indolicusg+wgs, Actinobacillus pleuropneumoniaeg+wgs, Actinobacillus porcitonsillarumg, Aeromonas caviaeg+p+wgs, Aeromonas enteropelogenesg+wgs, Aeromonas hydrophilag+wgs, Aeromonas veroniig+wgs, Aggregatibacter actinomycetemcomitansg+wgs, Avibacterium paragallinarumg+wgs, Citrobacter amalonaticusg+wgs, Citrobacter freundiig+wgs, Citrobacter koserig+wgs, Citrobacter portucalensisg+wgs, Citrobacter werkmaniig+wgs, Citrobacter youngaeg+wgs, Cronobacter condimentig, Cronobacter dublinensisg+wgs, Cronobacter malonaticusg+wgs, Cronobacter sakazakiig+wgs, Cronobacter turicensiswgs, Cronobacter universalisg+wgs, Edwardsiella tardag+wgs, Enterobacter asburiaeg+wgs, Enterobacter cancerogenusg+wgs, Enterobacter chengduensisg+wgs, Enterobacter cloacaeg+p+wgs, Enterobacter hormaecheig+p+wgs, Enterobacter kobeig+wgs, Enterobacter roggenkampiig+wgs, Enterococcus faecaliswgs, Escherichia albertiig+wgs, Escherichia colig+p+wgs, Escherichia fergusoniig+wgs, Escherichia marmotaeg+wgs, Glaesserella parasuisg+wgs, Haemophilus influenzaeg+wgs, Haemophilus parainfluenzaeg+wgs, Histophilus somnig+wgs, Klebsiella aerogenesg+p+wgs, Klebsiella huaxiensisg+wgs, Klebsiella michiganensisg+wgs, Klebsiella oxytocag+wgs, Klebsiella pneumoniaeg+p+wgs, Klebsiella quasipneumoniaeg+wgs, Kosakonia arachidisg+wgs, Leclercia adecarboxylatag+wgs, Leminorella grimontiiwgs, Morganella morganiig+wgs, Pasteurella multocidag+wgs, Pectobacterium parmentierig+wgs, Photorhabdus asymbioticag+wgs, Plesiomonas shigelloidesg+wgs, Proteus columbaeg, Proteus mirabilisg+wgs, Proteus pennerig+wgs, Proteus vulgarisg+wgs, Providencia alcalifaciensg+wgs, Providencia heimbachaeg+wgs, Providencia rettgerig+wgs, Providencia stuartiig+wgs, Pseudomonas aeruginosawgs, Raoultella planticolag+wgs, Salmonella bongorig+wgs, Salmonella entericag+p+wgs, Serratia liquefaciensg+p+wgs, Serratia marcescensg+p+wgs, Serratia odoriferag+wgs, Serratia rubidaeag+wgs, Shewanella putrefaciensg+wgs, Shigella boydiig+wgs, Shigella dysenteriaeg+wgs, Shigella flexnerig+wgs, Shigella sonneig+wgs, Staphylococcus aureuswgs, Vibrio choleraeg+wgs, Vibrio metoecusg+wgs, Vibrio mimicusg+wgs, Vibrio vulnificuswgs, Yersinia canariaeg+wgs, Yersinia enterocoliticag+wgs, Yersinia kristenseniig+wgs, Yersinia pestisg+p+wgs, Yersinia pseudotuberculosisg+wgs
Classification10 ontology terms | Show
Parent Term(s)3 ontology terms | Show
+ confers_resistance_to_antibiotic pulvomycin [Antibiotic]
+ derives_from elongation factor Tu
+ Escherichia coli EF-Tu mutants conferring resistance to elfamycin
Publications

Zeef LA, et al. 1994. EMBO J 13(21): 5113-5120. Pulvomycin-resistant mutants of E.coli elongation factor Tu. (PMID 7957075)
Resistomes

Prevalence of Escherichia coli EF-Tu mutants conferring resistance to Pulvomycin among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 414 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 variant model (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GIGRDI-AMR2
Actinobacillus indolicus100%0%100%0%0%
Actinobacillus pleuropneumoniae100%0%38.1%0%0%
Actinobacillus porcitonsillarum100%0%0%0%0%
Aeromonas caviae95.45%1.3%69.35%0%0%
Aeromonas enteropelogenes100%0%37.5%0%0%
Aeromonas hydrophila87.69%0%70.97%0%0%
Aeromonas salmonicida0%0%0%0%33.33%
Aeromonas veronii100%0%66.85%0%0%
Aggregatibacter actinomycetemcomitans96%0%94.9%0%0%
Avibacterium paragallinarum87.5%0%67.65%0%0%
Citrobacter amalonaticus100%0%43.64%0%0%
Citrobacter freundii100%0%27.27%0%0%
Citrobacter koseri100%0%27.03%0%0%
Citrobacter portucalensis92.59%0%34.23%0%0%
Citrobacter werkmanii100%0%56.41%0%0%
Citrobacter youngae100%0%50%0%0%
Cronobacter condimenti100%0%0%0%0%
Cronobacter dublinensis100%0%33.33%0%0%
Cronobacter malonaticus100%0%52.73%0%0%
Cronobacter sakazakii100%0%53.14%0%0%
Cronobacter turicensis0%0%16.67%0%0%
Cronobacter universalis100%0%33.33%0%0%
Edwardsiella tarda100%0%60%0%0%
Enterobacter asburiae100%0%32.02%0%0%
Enterobacter cancerogenus100%0%50%0%0%
Enterobacter chengduensis100%0%60%0%0%
Enterobacter cloacae98.21%0.56%36.42%0%0%
Enterobacter hormaechei95.32%0.06%52.35%0%0%
Enterobacter kobei100%0%27.07%0%0%
Enterobacter roggenkampii100%0%26.62%0%0%
Enterococcus faecalis0%0%0.04%0%0%
Escherichia albertii100%0%44.52%0%0%
Escherichia coli66.15%0.01%28.27%0%12.9%
Escherichia fergusonii100%0%30.43%0%0%
Escherichia marmotae100%0%27.08%0%0%
Glaesserella parasuis100%0%82.56%0%0%
Haemophilus influenzae100%0%54.22%0%0%
Haemophilus parainfluenzae100%0%78.05%0%0%
Histophilus somni100%0%31.03%0%0%
Klebsiella aerogenes100%1.09%40.4%0%0%
Klebsiella huaxiensis100%0%100%0%0%
Klebsiella michiganensis91.94%0%24.2%0%0%
Klebsiella oxytoca100%0%28.15%0%0%
Klebsiella pneumoniae96.8%0.02%24.54%0%0%
Klebsiella quasipneumoniae98.32%0%37.37%0%0%
Kosakonia arachidis100%0%100%0%0%
Leclercia adecarboxylata100%0%20.93%0%0%
Leminorella grimontii0%0%57.14%0%0%
Morganella morganii100%0%78.53%0%0%
Pasteurella multocida99.29%0%86.52%0%0%
Pectobacterium parmentieri100%0%35.29%0%0%
Photorhabdus asymbiotica100%0%100%0%0%
Plesiomonas shigelloides87.5%0%48.28%0%0%
Proteus columbae100%0%0%0%0%
Proteus mirabilis97.25%0%75.74%0%0%
Proteus penneri100%0%75%0%0%
Proteus vulgaris100%0%61.11%0%0%
Providencia alcalifaciens100%0%89.66%0%0%
Providencia heimbachae100%0%57.14%0%0%
Providencia rettgeri100%0%58.6%0%0%
Providencia stuartii93.75%0%72.73%0%0%
Pseudomonas aeruginosa0%0%0.04%0%0%
Raoultella planticola100%0%25.64%0%0%
Salmonella bongori100%0%52.63%0%0%
Salmonella enterica95.46%0.05%38.13%0%0%
Serratia liquefaciens100%16.67%42.86%0%0%
Serratia marcescens93.18%1.94%40.5%0%0%
Serratia odorifera100%0%20%0%0%
Serratia rubidaea100%0%18.18%0%0%
Shewanella putrefaciens100%0%25%0%0%
Shigella boydii80%0%35.56%0%0%
Shigella dysenteriae100%0%23.33%0%0%
Shigella flexneri96%0%39.91%0%0%
Shigella sonnei100%0%58.22%0%0%
Staphylococcus aureus0%0%0.01%0%0%
Vibrio cholerae50.67%0%65.56%0%0%
Vibrio metoecus50%0%56%0%0%
Vibrio mimicus50%0%59.09%0%0%
Vibrio vulnificus0%0%0.41%0%0%
Yersinia canariae100%0%100%0%0%
Yersinia enterocolitica100%0%95.45%0%0%
Yersinia kristensenii100%0%97.14%0%0%
Yersinia pestis100%0.16%77.73%0%0%
Yersinia pseudotuberculosis100%0%88.24%0%0%
Show Perfect Only


Detection Models

Model Type: protein variant model

Model Definition: Protein Variant Models (PVM) perform a similar search as Protein Homolog Models (PHM), i.e. detect protein sequences based on their similarity to a curated reference sequence, but secondarily screen query sequences for curated sets of mutations to differentiate them from antibiotic susceptible wild-type alleles. PVMs are designed to detect AMR acquired via mutation of house-keeping genes or antibiotic targets, e.g. a mutated gyrase resistant to aminocoumarin antibiotics. PVMs include a protein reference sequence (often from antibiotic susceptible wild-type alleles), a curated bit-score cut-off, and mapped resistance variants. Mapped resistance variants may include any or all of single point mutations, insertions, or deletions curated from the scientific literature. A Strict RGI match has a BLASTP bit-score above the curated BLASTP cutoff value and contains at least one curated mutation from amongst the mapped resistance variants, while a Loose RGI match has a bit-score less than the curated BLASTP bit-score cut-off but still contains at least one curated mutation from amongst the mapped resistance variants.

Bit-score Cut-off (blastP): 700

PubMed: mutation data hand curated from the scientific literature, evaluated as conferring resistance (R). CRyPTIC: mutation data acquired from the CRyPTIC catalog, evaluated as resistant (R), susceptible (S), or undetermined (U). ReSeqTB: mutation data acquired from the ReSeqTB catalog, evaluated as conferring resistance (Minimal, Moderate, High), not conferring resistance (None), or Indeterminate. WHO: mutation data acquired from the WHO 2023 catalog, evaluated as resistant (R), susceptible (S), or undetermined (U).

MutationMutation typePubMed
R231Vsingle resistance variantPMID:7957075
R231Csingle resistance variantPMID:7957075
R234Fsingle resistance variantPMID:7957075
R234Ssingle resistance variantPMID:7957075
R334Csingle resistance variantPMID:7957075
T335Asingle resistance variantPMID:7957075

>gb|AAN82549.1|-|Escherichia coli EF-Tu mutants conferring resistance to Pulvomycin [Escherichia coli CFT073]
MLSPEGESTIVRNIAVSKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAAR
AFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILV
VAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPG
DDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRG
TVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKRE
EIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHTPFFKGYRPQFYFRTTDVTGTIELP
EGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREGGRTVGAGVVAKVLG


>gb|AE014075.1|-|3901533-3902762|Escherichia coli EF-Tu mutants conferring resistance to Pulvomycin [Escherichia coli CFT073]
GTGCTCTCTCCTGAAGGGGAGAGCACTATAGTAAGGAATATAGCCGTGTCTAAAGAAAAATTTGAACGTACAAAACCGCACGTTAACGTT
GGTACTATCGGCCACGTTGACCACGGTAAAACTACTCTGACCGCTGCAATCACCACCGTACTGGCTAAAACCTACGGCGGTGCTGCTCGT
GCATTCGACCAGATCGATAACGCGCCGGAAGAAAAAGCTCGTGGTATCACCATCAACACTTCTCACGTTGAATACGACACCCCGACCCGT
CACTACGCGCACGTAGACTGCCCGGGGCACGCCGACTATGTTAAAAACATGATCACCGGTGCTGCTCAGATGGACGGCGCGATCCTGGTA
GTTGCTGCGACTGACGGCCCGATGCCGCAGACTCGTGAGCACATCCTGCTGGGTCGTCAGGTAGGCGTTCCGTACATCATCGTGTTCCTG
AACAAATGCGACATGGTTGATGACGAAGAGCTGCTGGAACTGGTTGAAATGGAAGTTCGTGAACTTCTGTCTCAGTACGACTTCCCGGGC
GACGACACTCCGATCGTTCGTGGTTCTGCTCTGAAAGCGCTGGAAGGCGACGCAGAGTGGGAAGCGAAAATCCTGGAACTGGCTGGCTTC
CTGGATTCTTACATTCCGGAACCAGAGCGTGCGATTGACAAGCCGTTCCTGCTGCCGATCGAAGACGTATTCTCCATCTCCGGTCGTGGT
ACCGTTGTTACCGGTCGTGTAGAACGCGGTATCATCAAAGTTGGTGAAGAAGTTGAAATCGTTGGTATCAAAGAGACTCAGAAGTCTACC
TGTACTGGCGTTGAAATGTTCCGCAAACTGCTGGACGAAGGCCGTGCTGGTGAGAACGTAGGTGTTCTGCTGCGTGGTATCAAACGTGAA
GAAATCGAACGTGGTCAGGTACTGGCTAAGCCGGGCACCATCAAGCCGCACACCAAGTTCGAATCTGAAGTGTACATTCTGTCCAAAGAT
GAAGGCGGTCGTCATACTCCGTTCTTCAAAGGCTACCGTCCGCAGTTCTACTTCCGTACTACTGACGTGACTGGTACCATCGAACTGCCG
GAAGGCGTAGAGATGGTAATGCCGGGCGACAACATCAAAATGGTTGTTACCCTGATCCACCCGATCGCGATGGACGACGGTCTGCGTTTC
GCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGCTAA

Curator Acknowledgements
Curator Description Most Recent Edit