Rv1145 Resolved · high auto-curated
H37Rv Rv1145 · MTBC0 - ·
303 aa · 1272423–1273334 (+) ·
RefSeq NP_215661.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane transport protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Transmembrane transport protein. Pfam: MMPL (PF03176.22). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
O06545
TrEMBL · unreviewed
· Inferred from homology
|
|---|---|
| UniProt name | Probable conserved transmembrane transport protein MmpL13a |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | mmpL13a |
| eggNOG description | Drug exporters of the RND superfamily |
| Orthologous group | COG2409 |
| KEGG orthology |
K06994
|
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 | 0.482 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 4 missense, 0 nonsense, 2 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 62.12% of strains (90205) · reference-fixed |
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 |
|---|---|---|---|---|
MMPL | PF03176.22 | 3.3e-38 | 45–276 | MMPL family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: mmpL13b (transmembrane transport protein), high confidence from genomic context alone (score 999 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1146 mmpL13b |
transmembrane transport protein | 999 | 999 ctx | neighborhood:709 fusion:900 cooccurence:774 coexpression:805 textmining:650 |
Rv0736 rslA |
anti-sigma-L factor RslA | 791 | 791 | coexpression:791 |
Rv1557 mmpL6 |
transmembrane transport protein MmpL6 | 706 | 690 ctx | cooccurence:687 |
Rv1147 hyp |
hypothetical protein | 628 | 627 ctx | neighborhood:454 |
Rv0507 mmpL2 |
transmembrane transport protein MmpL2 | 596 | 581 ctx | cooccurence:578 |
Rv0402c mmpL1 |
transmembrane transport protein MmpL1 | 684 | 537 ctx | cooccurence:534 |
Rv0450c mmpL4 |
transmembrane transport protein MmpL4 | 572 | 518 ctx | cooccurence:517 |
Rv3823c mmpL8 |
integral membrane transport protein MmpL8 | 550 | 500 ctx | cooccurence:497 |
Rv1183 mmpL10 |
transmembrane transport protein MmpL10 | 549 | 494 ctx | cooccurence:491 |
Rv1522c mmpL12 |
transmembrane transport protein MmpL12 | 503 | 485 ctx | cooccurence:483 |
Rv0184 hyp |
hypothetical protein | 422 | 422 ctx | cooccurence:422 |
Rv0185 hyp |
hypothetical protein | 400 | 400 ctx | cooccurence:400 |
Rv0202c mmpL11 |
transmembrane transport protein MmpL11 | 444 | 320 | |
Rv1500 pimF |
glycosyltransferase | 474 | 106 | textmining:436 |
Rv1144 |
oxidoreductase | 563 | 76 | textmining:547 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): transmembrane transport protein
- Pfam (hmmscan --cut_ga): MMPL PF03176.22 (E=3e-38)
- (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_215661.1)
- Domains: Pfam-A via hmmscan --cut_ga — MMPL (PF03176.22)
- 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
COG2409 - Curated reference: UniProt O06545 (TrEMBL, unreviewed; 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 —
24 functional partner(s); context anchor
mmpL13b - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1145| MLQRIARLAIAAPRRIIGFAVFVFIAAAVFGVPVADSLSPGGFQDPRSESARAIEVLTDKFGQSGQKMLIVVTAAAGADSPPAREVGTDIVEVLRRSPLVYNVTSPWTVPPTAAADLLSTDGKSGLIVVNVKGGENDAQNHAQTLSDEVAHDRDGVTVRAGGSAMEYAQINRQNKDDLLVMELIAIPLSFLVLIWVFGGLLAAGLPMAQAVLAVVGSMAVLRLVTFATEVSTFALNLSTALGLALAIDYTLLIVSRYRDELAEGSDRDEALIRTMALRGARCCFRRSPWRCRCRRLRCSRCTF