Rv0713 Still unknown · low auto-curated
H37Rv Rv0713 · MTBC0 mtbc0_000755 ·
313 aa · 814139–815080 (+) ·
RefSeq NP_215227.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | DUF4436 domain-containing protein |
| Revised (this work) | Conserved hypothetical protein; DUF domain(s) DUF4436. Function unknown. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6WZ58
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved transmembrane protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Domain of unknown function (DUF4436) |
| Orthologous group | 2E1SP |
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 | 1.035 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 9 missense, 0 nonsense, 2 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 0.47% of strains (683) · 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 |
|---|---|---|---|---|
DUF4436 | PF14494.12 | 4.3e-105 | 58–311 | Domain of unknown function (DUF4436) |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3843c (transmembrane protein), high confidence from genomic context alone (score 723 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3903c cpnT hyp |
hypothetical protein | 744 | 745 ctx | cooccurence:744 |
Rv3843c |
transmembrane protein | 723 | 723 ctx | cooccurence:723 |
Rv3166c hyp |
hypothetical protein | 677 | 677 ctx | cooccurence:677 |
Rv1682 hyp |
hypothetical protein | 669 | 669 ctx | cooccurence:669 |
Rv3446c hyp |
hypothetical protein | 615 | 615 ctx | cooccurence:613 |
Rv0538 |
membrane protein | 602 | 602 ctx | cooccurence:602 |
Rv2164c hyp |
hypothetical protein | 588 | 588 ctx | cooccurence:587 |
Rv0295c stf0 hyp |
hypothetical protein | 549 | 550 ctx | cooccurence:543 |
Rv2028c |
universal stress protein | 544 | 545 ctx | cooccurence:543 |
Rv1775 hyp |
hypothetical protein | 544 | 545 ctx | cooccurence:543 |
Rv2113 |
integral membrane protein | 515 | 516 ctx | cooccurence:504 |
Rv3788 hyp |
hypothetical protein | 487 | 487 ctx | cooccurence:474 |
Rv0712 hyp |
hypothetical protein | 480 | 481 ctx | neighborhood:481 |
Rv2487c PE_PGRS42 |
PE-PGRS family protein PE_PGRS42 | 478 | 478 ctx | cooccurence:478 |
Rv2423 hyp |
hypothetical protein | 472 | 473 ctx | cooccurence:471 |
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: transmembrane protein
- MTBC0 PGAP product: DUF4436 domain-containing protein
- Pfam (hmmscan --cut_ga): DUF4436 PF14494.12 (E=4e-105)
- (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_215227.1)
- Domains: Pfam-A via hmmscan --cut_ga — DUF4436 (PF14494.12)
- 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
2E1SP - Curated reference: UniProt I6WZ58 (TrEMBL, unreviewed; 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 —
37 functional partner(s); context anchor
Rv3843c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000755|Rv0713| MAGSDPPTGGPASQAGSDAGASPEHKHMSRRKHLVLDVCIILGVLIAYVFSLLGYDWLAHTPGPLPQPDVGTTDDTVVLIRFEELHTVANRLDVKVLVLPDDSMIDHRLQVLTTDTSVRLYPENELGDLQYPVGKLPAQVATTIEAHGNPGAWPFDTYTTDTVQADVLVGAGDNRQYVPARVEVTGSLEGWDISAVRVGESSQTSDRPDNVIITLKRAKGPLVFDLGICLVLITLPTLALFVAIQMITGRRKFQPPFGTWYAAMLFAVVPLRTILPGSPPAGAWIDRAVVIWVLIALAAAMVVYIVAWYRESD