Rv1749c Family assigned · low auto-curated
H37Rv Rv1749c · MTBC0 mtbc0_001862 ·
185 aa · 1989400–1989957 (-) ·
RefSeq NP_216265.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | integral membrane protein |
|---|---|
| MTBC0 PGAP re-annotation | DUF6790 family protein |
| Revised (this work) | DUF6790 family protein. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O65935
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible integral membrane protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | arCOG09452 |
|---|
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 | 0.191 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 3 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.19% of strains (282) · 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 |
|---|---|---|---|---|
DUF6790 | PF20589.4 | 1.2e-47 | 23–176 | Family of unknown function (DUF6790) |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: PPE8 (PPE family protein PPE8), high confidence from genomic context alone (score 740 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0355c PPE8 |
PPE family protein PPE8 | 740 | 740 ctx | cooccurence:740 |
Rv2490c PE_PGRS43 |
PE-PGRS family protein PE_PGRS43 | 736 | 736 ctx | cooccurence:736 |
Rv1452c PE_PGRS28 |
PE-PGRS family protein PE_PGRS28 | 734 | 734 ctx | cooccurence:734 |
Rv3350c PPE56 |
PPE family protein PPE56 | 731 | 731 ctx | cooccurence:731 |
Rv3347c PPE55 |
PPE family protein PPE55 | 731 | 731 ctx | cooccurence:731 |
Rv1651c PE_PGRS30 |
PE-PGRS family protein PE_PGRS30 | 730 | 730 ctx | cooccurence:730 |
Rv0872c PE_PGRS15 |
PE-PGRS family protein PE_PGRS15 | 728 | 728 ctx | cooccurence:728 |
Rv1004c |
membrane protein | 727 | 728 ctx | cooccurence:726 |
Rv2209 |
integral membrane protein | 718 | 718 ctx | cooccurence:718 |
Rv0304c PPE5 |
PPE family protein PPE5 | 715 | 716 ctx | cooccurence:715 |
Rv1917c PPE34 |
PPE family protein PPE34 | 712 | 712 ctx | cooccurence:712 |
Rv0341 iniB |
isoniazid inducible protein IniB | 700 | 700 ctx | cooccurence:700 |
Rv3403c hyp |
hypothetical protein | 700 | 700 ctx | cooccurence:700 |
Rv3343c PPE54 |
PPE family protein PPE54 | 697 | 698 ctx | cooccurence:697 |
Rv0613c hyp |
hypothetical protein | 694 | 694 ctx | cooccurence:680 |
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: integral membrane protein
- MTBC0 PGAP product: DUF6790 family protein
- Pfam (hmmscan --cut_ga): DUF6790 PF20589.4 (E=1e-47)
- (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_216265.1)
- Domains: Pfam-A via hmmscan --cut_ga — DUF6790 (PF20589.4)
- 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
arCOG09452 - Curated reference: UniProt O65935 (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 —
94 functional partner(s); context anchor
PPE8 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001862|Rv1749c| MLRAVNEIRQHDGTLKLGKGVGMFTIVGVIVALIGAFVQSRRHRHRPAADIHMLWWMVLIVGVVSIIGAGYHVFDGERTAELIGYTRGDGGFQWENAMGDLAIGVVGLMAYRFRGHFWLATIVVLTIQYVGDAAGHIYYWVVENNTNPYNIGVPLWTDILLPIVMWALYAWSWHSNGDAVPKGQP