Mycobacterium leprae rpoB mutations conferring resistance to rifampicin

Accession ARO:3003284
CARD Short NameMlep_rpoB_RIF
DefinitionPoint mutations that occurs in Mycobacterium leprae rpoB resulting in resistance to rifampicin.
AMR Gene Familyrifamycin-resistant beta-subunit of RNA polymerase (rpoB)
Drug Classrifamycin antibiotic
Resistance Mechanismantibiotic target alteration, antibiotic target replacement
Classification11 ontology terms | Show
Parent Term(s)5 ontology terms | Show
+ confers_resistance_to_antibiotic rifampin [Antibiotic]
+ rifamycin-resistant beta-subunit of RNA polymerase (rpoB) [AMR Gene Family]
+ confers_resistance_to_antibiotic rifaximin [Antibiotic]
+ confers_resistance_to_antibiotic rifabutin [Antibiotic]
+ confers_resistance_to_antibiotic rifapentine [Antibiotic]
Publications

You EY, et al. 2004. J Infect 50(1): 6-11. Mutations in genes related to drug resistance in Mycobacterium leprae isolates from leprosy patients in Korea. (PMID 15603834)

Resistomes

Prevalence of Mycobacterium leprae rpoB mutations conferring resistance to rifampicin 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).

Prevalence: protein variant model

SpeciesNCBI ChromosomeNCBI PlasmidNCBI WGSNCBI GI
No prevalence data


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): 2300

Legend:

  • discovered in clinical, agricultural, or environmental isolates

  • discovered via laboratory selection experiments

  • ReSeqTB https://platform.reseqtb.org

Published Variants:

PMID: 15603834S456L V472I

>gb|CAC30845.1|-|Mycobacterium leprae rpoB mutations conferring resistance to rifampicin [Mycobacterium leprae]
MLEGCILPDFGQSKTDVSPSQSRPQSSPNNSVPGAPNRISFAKLREPLEVPGLLDVQTDS
FEWLIGSPCWRAAAASRGDLKPVGGLEEVLYELSPIEDFSGSMSLSFSDPRFDEVKAPVE
ECKDKDMTYAAPLFVTAEFINNNTGEIKSQTVFMGDFPMMTEKGTFIINGTERVVVSQLV
RSPGVYFDETIDKSTEKTLHSVKVIPSRGAWLEFDVDKRDTVGVRIDRKRRQPVTVLLKA
LGWTSEQITERFGFSEIMRSTLEKDNTVGTDEALLDIYRKLRPGEPPTKESAQTLLENLF
FKEKRYDLARVGRYKVNKKLGLHAGELITSSTLTEEDVVATIEYLVRLHEGQSTMTVPGG
VEVPVETDDIDHFGNRRLRTVGELIQNQIRVGMSRMERVVRERMTTQDVEAITPQTLINI
RPVVAAIKEFFGTSQLSQFMDQNNPLSGLTHKRRLSALGPGGLSRERAGLEVRDVHPSHY
GRMCPIETPEGPNIGLIGSLSVYARVNPFGFIETPYRKVVDGVVSDEIEYLTADEEDRHV
VAQANSPIDEAGRFLEPRVLVRRKAGEVEYVASSEVDYMDVSPRQMVSVATAMIPFLEHD
DANRALMGANMQRQAVPLVRSEAPLVGTGMELRAAIDAGHVVVAEKSGVIEEVSADYITV
MADDGTRRTYRMRKFARSNHGTCANQSPIVDAGDRVEAGQVIADGPCTENGEMALGKNLL
VAIMPWEGHNYEDAIILSNRLVEEDVLTSIHIEEHEIDARDTKLGAEEITRDIPNVSDEV
LADLDERGIVRIGAEVRDGDILVGKVTPKGETELTPEERLLRAIFGEKAREVRDTSLKVP
HGESGKVIGIRVFSHEDDDELPAGVNELVRVYVAQKRKISDGDKLAGRHGNKGVIGKILP
AEDMPFLPDGTPVDIILNTHGVPRRMNVGQILETHLGWVAKSGWKIDVAGGIPDWAVNLP
EELLHAAPNQIVSTPVFDGAKEEELQGLLSSTLPNRDGDVMVGGDGKAVLFDGRSGEPFP
YPVTVGYMYIMKLHHLVDDKIHARSTGPYSMITQQPLGGKAQFGGQRFGEMECWAMQAYG
AAYTLQELLTIKSDDTVGRVKVYEAIVKGENIPEPGIPESFKVLLKELQSLCLNVEVLSS
DGAAIELREGEDEDLERAAANLGINLSRNESASIEDLA



>gb|AL450380.1|-|2273269-2276805|Mycobacterium leprae rpoB mutations conferring resistance to rifampicin [Mycobacterium leprae]
GTGCTGGAAGGATGCATCTTGCCAGATTTCGGCCAGAGCAAGACAGACGTTAGTCCTAGCCAGAGTCGCCCCCAAAGTTCGCCCAACAAC
TCCGTGCCCGGCGCGCCCAACCGAATTTCATTTGCCAAGCTCCGCGAACCGCTTGAGGTTCCGGGGCTACTTGATGTGCAGACTGATTCA
TTTGAGTGGTTGATCGGATCGCCGTGCTGGCGTGCAGCGGCCGCAAGCCGCGGCGATCTCAAGCCGGTGGGTGGTCTCGAAGAGGTGCTC
TACGAGCTGTCGCCGATCGAGGATTTCTCCGGCTCAATGTCATTGTCTTTCTCCGATCCCCGTTTTGACGAAGTCAAGGCGCCCGTCGAA
GAGTGCAAAGACAAGGACATGACGTACGCGGCCCCGCTGTTCGTCACGGCCGAGTTCATCAACAACAACACCGGGGAGATCAAGAGCCAG
ACGGTGTTTATGGGCGACTTCCCTATGATGACTGAGAAGGGAACCTTCATCATCAACGGGACCGAGCGTGTCGTCGTTAGCCAGCTGGTG
CGCTCCCCTGGAGTATACTTCGACGAGACGATCGACAAGTCCACAGAAAAGACGCTGCATAGTGTCAAGGTGATTCCCAGCCGCGGTGCC
TGGTTGGAATTCGATGTCGATAAACGCGACACCGTCGGTGTCCGCATTGACCGGAAGCGCCGGCAACCCGTCACGGTGCTTCTCAAAGCG
CTAGGTTGGACCAGTGAGCAGATCACCGAGCGTTTCGGTTTCTCCGAGATCATGCGCTCGACGCTGGAGAAGGACAACACAGTTGGCACC
GACGAGGCGCTGCTAGACATCTATCGTAAGTTGCGCCCAGGTGAGCCGCCGACTAAGGAGTCCGCGCAGACGCTGTTGGAGAACCTGTTC
TTCAAGGAGAAACGCTACGACCTGGCCAGGGTTGGTCGTTACAAGGTCAACAAGAAGCTCGGGTTGCACGCCGGTGAGTTGATCACGTCG
TCCACGCTGACCGAAGAGGATGTCGTCGCCACCATAGAGTACCTGGTTCGTCTGCATGAGGGTCAGTCGACAATGACTGTCCCAGGTGGG
GTAGAAGTGCCAGTGGAAACTGACGATATCGACCACTTCGGCAACCGCCGGCTGCGCACGGTCGGCGAATTGATCCAGAACCAGATCCGG
GTCGGTATGTCGCGGATGGAGCGGGTGGTCCGGGAGCGGATGACCACCCAGGACGTCGAGGCGATCACGCCGCAGACGCTGATCAATATC
CGTCCGGTGGTCGCCGCTATCAAGGAATTCTTCGGCACCAGCCAGCTGTCGCAGTTCATGGATCAGAACAACCCTCTGTCGGGCCTGACC
CACAAGCGCCGGCTGTCGGCGCTGGGCCCGGGTGGTTTGTCGCGTGAGCGTGCCGGGCTAGAGGTCCGTGACGTGCACCCTTCGCACTAC
GGCCGGATGTGCCCGATCGAGACTCCGGAGGGCCCGAACATAGGTCTGATCGGTTCATTGTCGGTGTACGCGCGGGTCAACCCCTTCGGG
TTCATCGAAACACCGTACCGCAAAGTGGTTGACGGTGTGGTCAGCGACGAGATCGAATACTTGACCGCTGACGAGGAAGACCGCCATGTC
GTGGCGCAGGCCAACTCGCCGATCGACGAGGCCGGCCGCTTCCTCGAGCCGCGCGTGTTGGTGCGCCGCAAGGCGGGCGAGGTGGAGTAC
GTGGCCTCGTCCGAGGTGGATTACATGGATGTCTCGCCACGCCAGATGGTGTCGGTGGCCACAGCGATGATTCCGTTCCTTGAGCACGAC
GACGCCAACCGTGCCCTGATGGGCGCTAACATGCAGCGCCAAGCGGTTCCGTTGGTGCGCAGCGAAGCACCGTTGGTGGGTACCGGTATG
GAGTTGCGCGCGGCCATCGACGCTGGCCACGTCGTCGTTGCGGAGAAGTCCGGGGTGATCGAGGAGGTTTCCGCCGACTACATCACCGTG
ATGGCCGATGACGGCACCCGGCGGACTTATCGGATGCGTAAGTTCGCGCGCTCCAACCACGGCACCTGCGCCAACCAGTCCCCGATCGTG
GATGCGGGGGATCGGGTCGAGGCCGGCCAAGTGATTGCTGACGGTCCGTGCACTGAGAACGGCGAGATGGCGTTGGGCAAGAACTTGCTG
GTGGCGATCATGCCGTGGGAGGGTCACAACTACGAGGATGCGATCATCCTGTCTAACCGACTGGTCGAAGAGGACGTGCTTACTTCGATT
CACATTGAGGAGCATGAGATCGACGCCCGTGACACCAAGCTGGGTGCTGAGGAGATCACCCGGGACATTCCCAACGTCTCCGATGAGGTG
CTAGCCGACTTGGACGAGCGGGGCATCGTGCGGATTGGCGCGGAGGTTCGTGACGGTGATATCCTGGTTGGCAAGGTCACCCCGAAGGGG
GAAACTGAGCTGACACCGGAAGAGCGGTTGCTGCGGGCGATCTTCGGCGAAAAGGCCCGCGAGGTCCGTGACACGTCGCTGAAGGTGCCA
CACGGCGAATCCGGCAAGGTGATCGGCATTCGGGTGTTCTCCCATGAGGATGACGACGAGCTGCCCGCCGGCGTCAACGAGCTGGTCCGT
GTCTACGTAGCCCAGAAGCGCAAGATCTCTGACGGTGACAAGCTGGCTGGGCGGCACGGCAACAAGGGCGTGATCGGCAAGATCCTGCCT
GCCGAGGATATGCCGTTTCTGCCAGACGGCACCCCGGTGGACATCATCCTCAACACTCACGGGGTGCCGCGGCGGATGAACGTCGGTCAG
ATCTTGGAAACCCACCTTGGGTGGGTAGCCAAGTCCGGCTGGAAGATCGACGTGGCCGGCGGTATACCGGATTGGGCGGTCAACTTGCCT
GAGGAGTTGTTGCACGCTGCGCCCAACCAGATCGTGTCGACCCCGGTGTTCGACGGCGCCAAGGAAGAGGAACTACAGGGCCTGTTGTCC
TCCACGTTGCCCAACCGCGACGGCGATGTGATGGTGGGCGGCGACGGCAAGGCGGTGCTCTTCGATGGGCGCAGCGGTGAGCCGTTCCCT
TATCCGGTGACGGTTGGCTACATGTACATCATGAAGCTGCACCACTTGGTGGACGACAAGATCCACGCCCGCTCCACCGGCCCGTACTCG
ATGATTACCCAGCAGCCGTTGGGTGGTAAGGCACAGTTCGGTGGCCAGCGATTCGGTGAGATGGAGTGCTGGGCCATGCAGGCCTACGGT
GCGGCCTACACGCTGCAGGAGCTGTTGACCATCAAGTCCGACGACACCGTCGGTCGGGTCAAGGTTTACGAGGCTATCGTTAAGGGTGAG
AACATCCCCGAGCCGGGCATCCCCGAGTCGTTCAAGGTGCTGCTCAAGGAGTTACAGTCGCTGTGTCTCAACGTCGAGGTGCTGTCGTCC
GACGGTGCGGCGATCGAGTTGCGCGAAGGTGAGGATGAGGACCTCGAGCGGGCTGCGGCCAACCTCGGTATCAACTTGTCCCGCAACGAA
TCGGCGTCCATAGAAGATCTGGCTTAG