emrB Resolved · high auto-curated
H37Rv Rv0783c · MTBC0 mtbc0_000833 ·
540 aa · 881244–882866 (-) ·
RefSeq NP_215297.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | multidrug resistance protein EmrB |
|---|---|
| MTBC0 PGAP re-annotation | MFS transporter |
| Revised (this work) | MFS transporter. Pfam: MFS_1 (PF07690.22). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WG89
SwissProt · reviewed
· Inferred from homology
|
|---|---|
| UniProt name | Multidrug resistance protein B homolog |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
U Intracellular trafficking, secretion and vesicular transport
|
|---|---|
| Preferred name | emrB |
| eggNOG description | Translocase that confers resistance to substances of high hydrophobicity. involved in transport of multidrug across the membrane (export) multidrug resistance by an export mechanism. responsible for the translocation of the substrate across the membrane |
| Orthologous group | COG0477 |
| Gene Ontology (21) |
GO:0003674, GO:0005215, GO:0005575, GO:0005576, GO:0005623, GO:0005886, GO:0005887, GO:0006810, GO:0008150, GO:0016020, GO:0016021, GO:0022857 +9 more
|
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 | 0.165 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 11 synonymous, 5 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.19% of strains (279) · clonal |
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 |
|---|---|---|---|---|
MFS_1 | PF07690.22 | 9.5e-54 | 50–444 | Major Facilitator Superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0785 (KsdD-like steroid dehydrogenase), high confidence from genomic context alone (score 727 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0784 hyp |
hypothetical protein | 761 | 761 ctx | neighborhood:759 |
Rv3666c dppA |
dipeptide ABC transporter substrate-binding lipoprotein DppA | 751 | 751 | coexpression:751 |
Rv0785 |
KsdD-like steroid dehydrogenase | 726 | 727 ctx | neighborhood:723 |
Rv3728 |
membrane protein | 428 | 331 | |
Rv1250 |
MFS-type drug transporter | 472 | 325 | |
Rv2846c efpA |
MFS-type transporter EfpA | 453 | 318 | |
Rv2459 jefA |
MFS-type transporter | 409 | 312 | |
Rv1634 |
multidrug-efflux transporter | 410 | 271 | |
Rv2937 drrB |
daunorubicin ABC transporter permease DrrB | 482 | 241 | |
Rv0482 murB |
UDP-N-acetylenolpyruvoylglucosamine reductase | 416 | 139 | |
Rv3092c |
integral membrane protein | 871 | 54 | textmining:870 |
Rv2209 |
integral membrane protein | 652 | 46 | textmining:651 |
Rv1377c |
transferase | 870 | 42 | textmining:870 |
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: multidrug resistance protein EmrB
- MTBC0 PGAP product: MFS transporter
- Pfam (hmmscan --cut_ga): MFS_1 PF07690.22 (E=9e-54)
- (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_215297.1)
- Domains: Pfam-A via hmmscan --cut_ga — MFS_1 (PF07690.22)
- 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
COG0477 - Curated reference: UniProt P9WG89 (SwissProt, reviewed; Inferred from homology)
- 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 —
13 functional partner(s); context anchor
Rv0785 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000833|Rv0783c|emrB MLGNAMVEACPAEGDAPVPITPAGRPRSGQRSYPDRLDVGLLRTAGVCVLASVMAHVDVTVVSVAQRTFVADFGSTQAVVAWTMTGYMLALATVIPTAGWAADRFGTRRLFMGSVLAFTLGSLLCAVAPNILLLIIFRVVQGFGGGMLTPVSFAILAREAGPKRLGRVMAVVGIPMLLGPVGGPILGGWLIGAYGWRWIFLVNLPVGLSALVLAAIVFPRDRPAASENFDYMGLLLLSPGLATFLFGVSSSPARGTMADRHVLIPAITGLALIAAFVAHSWYRTEHPLIDMRLFQNRAVAQANMTMTVLSLGLFGSFLLLPSYLQQVLHQSPMQSGVHIIPQGLGAMLAMPIAGAMMDRRGPAKIVLVGIMLIAAGLGTFAFGVARQADYLPILPTGLAIMGMGMGCSMMPLSGAAVQTLAPHQIARGSTLISVNQQVGGSIGTALMSVLLTYQFNHSEIIATAKKVALTPESGAGRGAAVDPSSLPRQTNFAAQLLHDLSHAYAVVFVIATALVVSTLIPAAFLPKQQASHRRAPLLSA