Rv2707 Family assigned · medium auto-curated
H37Rv Rv2707 · MTBC0 mtbc0_002881 ·
324 aa · 3042988–3043962 (+) ·
RefSeq NP_217223.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | YihY/virulence factor BrkB family protein |
| Revised (this work) | YihY/virulence factor BrkB family protein. Pfam: Virul_fac_BrkB (PF03631.21). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6YE67
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved transmembrane alanine and leucine rich protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | ribonuclease BN |
| Orthologous group | COG1295 |
| KEGG orthology |
K07058
|
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 | 0.102 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 synonymous, 2 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 |
|---|---|---|---|---|
Virul_fac_BrkB | PF03631.21 | 2.2e-48 | 26–282 | Virulence factor BrkB |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0876c (transmembrane protein), medium confidence from genomic context alone (score 478 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2705c hyp |
hypothetical protein | 781 | 781 ctx | neighborhood:778 |
Rv2706c hyp |
hypothetical protein | 544 | 544 ctx | neighborhood:539 |
Rv0876c |
transmembrane protein | 496 | 478 ctx | cooccurence:465 |
Rv1222 rseA |
anti-sigma E factor RseA | 470 | 470 ctx | cooccurence:410 |
Rv1607 chaA |
ionic transporter integral membrane protein ChaA | 440 | 441 | coexpression:423 |
Rv2323c hyp |
hypothetical protein | 421 | 421 | coexpression:417 |
Rv3092c |
integral membrane protein | 419 | 420 | coexpression:420 |
Rv2643 arsC |
arsenic-transport integral membrane protein ArsC | 405 | 338 | |
Rv3869 eccB1 |
ESX-1 secretion system protein EccB | 568 | 86 | textmining:547 |
Rv3868 eccA1 |
ESX-1 secretion system protein EccA1 | 533 | 85 | textmining:511 |
Rv2938 drrC |
daunorubicin ABC transporter permease DrrC | 459 | 67 | textmining:444 |
Rv1422 cuvA hyp |
hypothetical protein | 548 | 51 | textmining:544 |
Rv3560c fadE30 |
acyl-CoA dehydrogenase FadE30 | 515 | 49 | textmining:511 |
Rv2936 drrA |
daunorubicin ABC transporter ATP-binding protein DrrA | 457 | 48 | textmining:454 |
Rv3168 |
aminoglycoside phosphotransferase | 806 | 47 | textmining:805 |
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: hypothetical protein
- MTBC0 PGAP product: YihY/virulence factor BrkB family protein
- Pfam (hmmscan --cut_ga): Virul_fac_BrkB PF03631.21 (E=2e-48)
- (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_217223.1)
- Domains: Pfam-A via hmmscan --cut_ga — Virul_fac_BrkB (PF03631.21)
- 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
COG1295 - Curated reference: UniProt I6YE67 (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 —
15 functional partner(s); context anchor
Rv0876c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002881|Rv2707| MSDQVPKPHRHHIWRITRRTLSKSWDDSIFSESAQAAFWSALSLPPLLLGMLGSLAYVAPLFGPDTLPAIEKSALSTAHSFFSPSVVNEIIEPTIGDITNNARGEVASLGFLISLWAGSSAISAFVDAVVEAHDQTPLRHPVRQRFFALFLYVVMLVFLVATAPVMVVGPRKVSEHIPESLANLLRYGYYPALILGLTVGVILLYRVALPVPLPTHRLVLGAVLAIAVFLIATLGLRVYLAWITRTGYTYGALATPIAFLLFAFFGGFAIMLGAELNAAVQEEWPAPATHAHRLGNWLKARIGVGTTTYSSTAQHSAVAAEPPS