APH(3')-IIa

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Accession ARO:3002644
Synonym(s)aphA-2
CARD Short NameAPH(3')-IIa
DefinitionAPH(3')-IIa is a transposon-encoded aminoglycoside phosphotransferase in E. coli.
AMR Gene FamilyAPH(3')
Drug Classaminoglycoside antibiotic
Resistance Mechanismantibiotic inactivation
Resistomes with Perfect MatchesAcinetobacter baumanniiwgs, Acinetobacter johnsoniiwgs, Acinetobacter lwoffiiwgs, Clostridium botulinumwgs, Corynebacterium pseudotuberculosisg, Elizabethkingia anopheliswgs, Enterobacter asburiaeg, Enterobacter cloacaewgs, Enterobacter hormaecheiwgs, Escherichia albertiip, Escherichia colig+p+wgs, Escherichia fergusoniip+wgs, Klebsiella michiganensiswgs, Klebsiella oxytocap, Klebsiella pneumoniaep+wgs, Klebsiella quasipneumoniaewgs, Leptospira interroganswgs, Listeria monocytogeneswgs, Phocaeicola doreiwgs, Pseudomonas aeruginosag+wgs, Pseudomonas putidawgs, Rhizobium leguminosarumwgs, Salmonella entericag+p+wgs, Serratia marcescenswgs, Shigella flexnerip, Shigella sonneiwgs, Staphylococcus aureuswgs, Staphylococcus epidermidiswgs, Streptococcus suiswgs
Resistomes with Sequence VariantsAcinetobacter baumanniiwgs, Acinetobacter johnsoniiwgs, Acinetobacter lwoffiiwgs, Acinetobacter nosocomialiswgs, Aeromonas caviaewgs, Bacillus amyloliquefacienswgs, Bacillus thuringiensiswgs, Bordetella bronchisepticawgs, Clostridium botulinumwgs, Clostridium perfringenswgs, Corynebacterium pseudotuberculosisg, Elizabethkingia anopheliswgs, Enterobacter asburiaeg, Enterobacter cloacaewgs, Enterobacter hormaecheiwgs, Escherichia albertiip, Escherichia colig+p+wgs, Escherichia fergusoniip+wgs, Klebsiella michiganensiswgs, Klebsiella oxytocap, Klebsiella pneumoniaep+wgs, Klebsiella quasipneumoniaep+wgs, Leptospira interroganswgs, Listeria monocytogeneswgs, Phocaeicola doreiwgs, Providencia stuartiiwgs, Pseudomonas aeruginosag+p+wgs, Pseudomonas putidawgs, Pseudomonas syringaewgs, Rhizobium leguminosarumwgs, Rhodopseudomonas palustrisg, Salmonella entericag+p+wgs, Serratia marcescenswgs, Shigella flexnerip, Shigella sonneiwgs, Staphylococcus aureuswgs, Staphylococcus epidermidiswgs, Stenotrophomonas maltophiliawgs, Streptococcus suiswgs, Vibrio choleraeg, Vibrio parahaemolyticuswgs
Classification13 ontology terms | Show
Parent Term(s)7 ontology terms | Show
+ confers_resistance_to_antibiotic kanamycin A [Antibiotic]
+ confers_resistance_to_antibiotic neomycin [Antibiotic]
+ confers_resistance_to_antibiotic paromomycin [Antibiotic]
+ confers_resistance_to_antibiotic ribostamycin [Antibiotic]
+ confers_resistance_to_antibiotic butirosin [Antibiotic]
+ confers_resistance_to_antibiotic gentamicin B [Antibiotic]
+ APH(3')-II
Publications

Beck E, et al. 1982. Gene 19(3): 327-336. Nucleotide sequence and exact localization of the neomycin phosphotransferase gene from transposon Tn5. (PMID 6295884)

Resistomes

Prevalence of APH(3')-IIa among the sequenced genomes, plasmids, and whole-genome shotgun assemblies available at NCBI or IslandViewer for 377 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 homolog model (view sequences)

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GI
Acinetobacter baumannii0%0%0.15%0%
Acinetobacter johnsonii0%0%4%0%
Acinetobacter lwoffii0%0%4.35%0%
Acinetobacter nosocomialis0%0%0.65%0%
Aeromonas caviae0%0%0.69%0%
Bacillus amyloliquefaciens0%0%1.35%0%
Bacillus thuringiensis0%0%0.16%0%
Bordetella bronchiseptica0%0%1.35%0%
Clostridium botulinum0%0%0.57%0%
Clostridium perfringens0%0%0.3%0%
Corynebacterium pseudotuberculosis6.09%0%0%0%
Elizabethkingia anophelis0%0%1.18%0%
Enterobacter asburiae3.85%0%0%0%
Enterobacter cloacae0%0%0.72%0%
Enterobacter hormaechei0%0%0.41%0%
Escherichia albertii0%2.56%0%0%
Escherichia coli0.24%0.29%1.76%0%
Escherichia fergusonii0%1.88%1.41%0%
Klebsiella michiganensis0%0%0.3%0%
Klebsiella oxytoca0%0.82%0%0%
Klebsiella pneumoniae0%0.11%0.28%0%
Klebsiella quasipneumoniae0%0.27%0.16%0%
Leptospira interrogans0%0%1.64%0%
Listeria monocytogenes0%0%0.03%0%
Phocaeicola dorei0%0%1.14%0%
Providencia stuartii0%0%2.27%0%
Pseudomonas aeruginosa0.38%0.32%0.54%0%
Pseudomonas putida0%0%0.68%0%
Pseudomonas syringae0%0%0.35%0%
Rhizobium leguminosarum0%0%0.2%0%
Rhodopseudomonas palustris12.5%0%0%0%
Salmonella enterica0.51%1.76%0.84%0%
Serratia marcescens0%0%0.28%0%
Shigella flexneri0%1.14%0%0%
Shigella sonnei0%0%0.44%0%
Staphylococcus aureus0%0%0.07%0%
Staphylococcus epidermidis0%0%0.19%0%
Stenotrophomonas maltophilia0%0%0.17%0%
Streptococcus suis0%0%0.11%0%
Vibrio cholerae0.48%0%0%0%
Vibrio parahaemolyticus0%0%0.06%0%
Show Perfect Only


Detection Models

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


>gb|CAA23892.1|+|APH(3')-IIa [Escherichia coli]
MIEQDGLHAGSPAAWVERLFGYDWAQQTIGCSDAAVFRLSAQGRPVLFVKTDLSGALNELQDEAARLSWLATTGVPCAAVLDVVTEAGRD
WLLLGEVPGQDLLSSHLAPAEKVSIMADAMRRLHTLDPATCPFDHQAKHRIERARTRMEAGLVDQDDLDEEHQGLAPAELFARLKARMPD
GEDLVVTHGDACLPNIMVENGRFSGFIDCGRLGVADRYQDIALATRDIAEELGGEWADRFLVLYGIAAPDSQRIAFYRLLDEFF


>gb|V00618.1|+|151-945|APH(3')-IIa [Escherichia coli]
ATGATTGAACAAGATGGATTGCACGCAGGTTCTCCGGCCGCTTGGGTGGAGAGGCTATTCGGCTATGACTGGGCACAACAGACAATCGGC
TGCTCTGATGCCGCCGTGTTCCGGCTGTCAGCGCAGGGGCGCCCGGTTCTTTTTGTCAAGACCGACCTGTCCGGTGCCCTGAATGAACTG
CAGGACGAGGCAGCGCGGCTATCGTGGCTGGCCACGACGGGCGTTCCTTGCGCAGCTGTGCTCGACGTTGTCACTGAAGCGGGAAGGGAC
TGGCTGCTATTGGGCGAAGTGCCGGGGCAGGATCTCCTGTCATCTCACCTTGCTCCTGCCGAGAAAGTATCCATCATGGCTGATGCAATG
CGGCGGCTGCATACGCTTGATCCGGCTACCTGCCCATTCGACCACCAAGCGAAACATCGCATCGAGCGAGCACGTACTCGGATGGAAGCC
GGTCTTGTCGATCAGGATGATCTGGACGAAGAGCATCAGGGGCTCGCGCCAGCCGAACTGTTCGCCAGGCTCAAGGCGCGCATGCCCGAC
GGCGAGGATCTCGTCGTGACCCATGGCGATGCCTGCTTGCCGAATATCATGGTGGAAAATGGCCGCTTTTCTGGATTCATCGACTGTGGC
CGGCTGGGTGTGGCGGACCGCTATCAGGACATAGCGTTGGCTACCCGTGATATTGCTGAAGAGCTTGGCGGCGAATGGGCTGACCGCTTC
CTCGTGCTTTACGGTATCGCCGCTCCCGATTCGCAGCGCATCGCCTTCTATCGCCTTCTTGACGAGTTCTTCTGA