Rv2629 Family assigned · medium auto-curated
H37Rv Rv2629 · MTBC0 mtbc0_002798 ·
374 aa · 2979329–2980453 (+) ·
RefSeq NP_217145.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Contains baeRF_family10 (PF18854.7), baeRF_family2 (PF18844.7) domain(s); putative function inferred from the domain architecture. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WL63
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv2629 |
UniProt still lists this protein as Uncharacterized protein Rv2629; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
J Translation, ribosomal structure and biogenesis
|
|---|---|
| eggNOG description | translation release factor activity |
| Orthologous group | COG1503 |
| Gene Ontology (20) |
GO:0001666, GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0006950, GO:0008150, GO:0009628, GO:0016020 +8 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 | 0.709 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 2 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.10% of strains (145) · 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 |
|---|---|---|---|---|
baeRF_family10 | PF18854.7 | 2.2e-09 | 104–223 | Bacterial archaeo-eukaryotic release factor family 10 |
baeRF_family2 | PF18844.7 | 2.1e-42 | 118–266 | Bacterial archaeo-eukaryotic release factor family 2 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: rtcB (RNA-splicing ligase RtcB), high confidence from genomic context alone (score 904 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) |
|---|---|---|---|---|
Rv2630 hyp |
hypothetical protein | 968 | 969 ctx | neighborhood:785 coexpression:860 |
Rv0707 rpsC |
30S ribosomal protein S3 | 909 | 904 | experimental:789 database:404 |
Rv0703 rplW |
50S ribosomal protein L23 | 904 | 904 | experimental:781 database:533 |
Rv2631 rtcB |
RNA-splicing ligase RtcB | 903 | 904 ctx | neighborhood:491 coexpression:819 |
Rv1300 hemK |
release factor glutamine methyltransferase | 889 | 872 | database:844 |
Rv2005c |
universal stress protein | 846 | 847 | coexpression:822 |
Rv0705 rpsS |
30S ribosomal protein S19 | 845 | 840 | experimental:715 database:404 |
Rv0721 rpsE |
30S ribosomal protein S5 | 842 | 835 | experimental:665 |
Rv0651 rplJ |
50S ribosomal protein L10 | 839 | 833 | coexpression:408 experimental:446 database:533 |
Rv2890c rpsB |
30S ribosomal protein S2 | 833 | 825 | experimental:456 database:524 |
Rv0682 rpsL |
30S ribosomal protein S12 | 838 | 801 | experimental:652 |
Rv3132c devS |
two component sensor histidine kinase DevS | 797 | 797 | coexpression:797 |
Rv0570 nrdZ |
vitamin B12-dependent ribonucleoside-diphosphate reductase | 797 | 797 | coexpression:797 |
Rv0722 rpmD |
50S ribosomal protein L30 | 799 | 789 | coexpression:427 experimental:456 |
Rv0716 rplE |
50S ribosomal protein L5 | 774 | 774 | experimental:474 database:404 |
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: hypothetical protein
- Pfam (hmmscan --cut_ga): baeRF_family10 PF18854.7 (E=2e-09), baeRF_family2 PF18844.7 (E=2e-42)
- (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_217145.1)
- Domains: Pfam-A via hmmscan --cut_ga — baeRF_family10 (PF18854.7), baeRF_family2 (PF18844.7)
- 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
COG1503 - Curated reference: UniProt P9WL63 (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 —
96 functional partner(s); context anchor
rtcB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002798|Rv2629| MRSERLRWLVAAEGPFASVYFDDSHDTLDAVERREATWRDVRKHLESRDAKQELIDSLEEAVRDSRPAVGQRGRALIATGEQVLVNEHLIGPPPATVIRLSDYPYVVPLIDLEMRRPTYVFAAVDHTGADVKLYQGATISSTKIDGVGYPVHKPVTAGWNGYGDFQHTTEEAIRMNCRAVADHLTRLVDAADPEVVFVSGEVRSRTDLLSTLPQRVAVRVSQLHAGPRKSALDEEEIWDLTSAEFTRRRYAEITNVAQQFEAEIGRGSGLAAQGLAEVCAALRDGDVDTLIVGELGEATVVTGKARTTVARDADMLSELGEPVDRVARADEALPFAAIAVGAALVRDDNRIAPLDGVGALLRYAATNRLGSHRS