Rv1218c Family assigned · medium auto-curated
H37Rv Rv1218c · MTBC0 mtbc0_001306 ·
311 aa · 1370240–1371175 (-) ·
RefSeq NP_215734.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | tetronasin ABC transporter ATP-binding protein |
|---|---|
| MTBC0 PGAP re-annotation | multidrug efflux ABC transporter ATP-binding protein |
| Revised (this work) | Multidrug efflux ABC transporter ATP-binding protein. Pfam: ABC_tran (PF00005.34), AAA_21 (PF13304.13), DrrA1-3_C (PF13732.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O86311
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Multidrug efflux system ATP-binding protein Rv1218c |
| EC (curated) |
EC 7.6.2.-
|
| Curated function | Probably part of the ABC transporter complex Rv1217c-Rv1218c involved in the resistance to a wide range of structurally unrelated drugs. Could be involved in the efflux of substrates belonging to the diverse chemical classes of novobiocins, biarylpiperazines, pyridines, bisanilinopyrimidines, pyrroles and, to a smaller extent, pyrazolones. Probably responsible for energy coupling to the transport system (Probable). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
V Defense mechanisms
|
|---|---|
| eggNOG description | ABC transporter |
| Orthologous group | COG1131 |
| KEGG orthology |
K01990
|
| KEGG modules |
M00254
|
Orthology-based transfer (eggNOG 5.0.2, diamond). EC/KO/GO/CAZy are computed annotations, not manual curation; cross-check against the primary literature before treating a specific reaction as established.
Conservation & selection (intra-MTBC, 145 209 strains)
| pN/pS | 0.691 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 4 missense, 0 nonsense, 0 frameshift |
pN/pS from segregating SNPs (singletons removed) normalised by possible sites. Low pN/pS = purifying selection (a strong signal that a "hypothetical" is a real, constrained gene). A high pN/pS is ambiguous: relaxed constraint or positive selection (drug resistance, antigenic variation) inflate it; e.g. rpoB/katG/pncA score high here for resistance, not loss of function. A clonal disruption (one allele over a clade) suggests lineage pseudogenisation; a convergent one (many independent alleles) is typical of resistance loss-of-function.
Domains (Pfam, hmmscan --cut_ga)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
ABC_tran | PF00005.34 | 6.5e-28 | 25–163 | ABC transporter |
AAA_21 | PF13304.13 | 1.1e-07 | 133–194 | AAA domain, putative AbiEii toxin, Type IV TA system |
DrrA1-3_C | PF13732.13 | 3.7e-07 | 217–295 | ATP-binding protein DrrA1-3-like, C-terminal domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1217c (tetronasin ABC transporter integral membrane protein), high confidence from genomic context alone (score 995 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1217c |
tetronasin ABC transporter integral membrane protein | 999 | 995 ctx | neighborhood:881 cooccurence:774 coexpression:830 textmining:875 |
Rv1219c raaS |
transcriptional regulator | 981 | 908 ctx | neighborhood:882 textmining:803 |
Rv2397c cysA1 |
sulfate ABC transporter ATP-binding protein CysA | 900 | 900 ctx | fusion:900 |
Rv1216c |
integral membrane protein | 901 | 831 ctx | neighborhood:801 textmining:438 |
Rv1686c |
ABC transporter permease | 917 | 745 ctx | cooccurence:564 coexpression:408 textmining:689 |
Rv1215c hyp |
hypothetical protein | 900 | 726 ctx | neighborhood:725 textmining:650 |
Rv1272c |
drug ABC transporter ATP-binding protein | 800 | 706 | database:536 |
Rv2938 drrC |
daunorubicin ABC transporter permease DrrC | 801 | 691 ctx | cooccurence:473 coexpression:405 |
Rv1273c |
drug ABC transporter ATP-binding protein | 755 | 690 | database:536 |
Rv1348 irtA |
iron ABC transporter ATP-binding protein/permease IrtA | 638 | 615 | database:536 |
Rv1349 irtB |
iron ABC transporter ATP-binding protein/permease IrtB | 631 | 615 | database:536 |
Rv0194 |
multidrug ABC transporter ATPase/permease | 657 | 612 | database:536 |
Rv2937 drrB |
daunorubicin ABC transporter permease DrrB | 819 | 575 | coexpression:405 textmining:593 |
Rv1311 atpC |
ATP synthase subunit epsilon | 549 | 550 | experimental:444 |
Rv2832c ugpC |
sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC | 533 | 533 ctx | fusion:532 |
STRING combines evidence channels (neighborhood, fusion, cooccurrence, coexpression, experimental, database, text-mining) into a 0–1000 score. The ctx badge marks edges carried by the genomic-context channels (conserved neighborhood, fusion, phylogenetic co-occurrence), which are independent of orthology and structure and the strongest signal for an unknown gene. The no text-mining column recomputes the score from data alone, so a link that does not depend on the literature is visible. Association is a function hypothesis, not proof: corroborate with the operon context and the primary literature before assigning a function.
Evidence
- Legacy H37Rv annotation: tetronasin ABC transporter ATP-binding protein
- MTBC0 PGAP product: multidrug efflux ABC transporter ATP-binding protein
- Pfam (hmmscan --cut_ga): ABC_tran PF00005.34 (E=7e-28), AAA_21 PF13304.13 (E=1e-07), DrrA1-3_C PF13732.13 (E=4e-07)
- (auto-curated by rules from PGAP + Pfam + Foldseek; not hand-reviewed)
Sources
- Ancestral sequence & coordinates: Harrison LB et al. (2024), An imputed ancestral reference genome for the MTBC, doi:10.1101/2023.09.07.556366
- Product annotation: NCBI PGAP on MTBC0; legacy from H37Rv NC_000962.3 (RefSeq NP_215734.1)
- Domains: Pfam-A via hmmscan --cut_ga — ABC_tran (PF00005.34), AAA_21 (PF13304.13), DrrA1-3_C (PF13732.13)
- Sequence-level signal: ESM Atlas (EvolutionaryScale × BioHub) — exploratory
- Controlled vocabulary: eggNOG-mapper 2.1.12 (Cantalapiedra et al. 2021,
doi:10.1093/molbev/msab293), eggNOG 5.0 DB
(Huerta-Cepas et al. 2019) — OG
COG1131 - Curated reference: UniProt O86311 (SwissProt, reviewed; Evidence at protein level)
- Intra-MTBC selection: pN/pS and disruption from SPDI variants of 145 209 MTBC strains (this work, local collection vs H37Rv NC_000962.3)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
47 functional partner(s); context anchor
Rv1217c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001306|Rv1218c| MSADNHQVPIEIRGLTKHFGSVRALDGLDLTVREGEVHGFLGPNGAGKSTTLRILLGLVKADGGSVRLLGGDPWTDAVDLHRHIAYVPGDVTLWPSLTGGETIDLLARMRGGIDNARRAELIERFGLDPTKKARTYSKGNRQKVSLISALSSHATLLLLDEPSSGLDPLMENVFQQCIGEARQRGVTVLLSSHILAETEALCEKVTIIRAGKTVESGSLDALRHLSRTSIKAEMIGDPGDLSRIKGVEDISIEGTTVRAQVDSESLRELIQVLGHAGVRSLVSQPPTLEELFLRHYSLGPEVAAEQQVATP