Rv2077c Still unknown · low auto-curated
H37Rv Rv2077c · MTBC0 mtbc0_002210 ·
323 aa · 2361936–2362907 (-) ·
RefSeq NP_216593.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Conserved hypothetical protein; no recognised domain. 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 |
P9WLL1
SwissProt · reviewed
· Inferred from homology
|
|---|---|
| UniProt name | Uncharacterized protein Rv2077c |
UniProt still lists this protein as Uncharacterized protein Rv2077c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 28N42 |
|---|---|
| Gene Ontology (8) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0044424, GO:0044444, GO:0044464
|
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 | 1.443 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 7 missense, 1 nonsense, 1 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 0.27% of strains (396) · 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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2077A hyp |
hypothetical protein | 782 | 782 ctx | neighborhood:781 |
Rv2076c hyp |
hypothetical protein | 767 | 767 ctx | neighborhood:756 |
Rv2075c hyp |
hypothetical protein | 436 | 436 ctx | neighborhood:433 |
Rv0041 leuS |
leucine--tRNA ligase | 431 | 432 | experimental:414 |
Rv3751 |
Rv3751, (MTV025.099), len: 71 aa. Probable integrase (fragment), similar to part of many e.g. Q48908 integrase (fragment) from Mycobacterium | 872 | 57 | textmining:870 |
Rv0974c accD2 |
acetyl-/propionyl-CoA carboxylase subunit beta | 734 | 51 | textmining:732 |
Rv3343c PPE54 |
PPE family protein PPE54 | 659 | 50 | textmining:656 |
Rv0056 rplI |
50S ribosomal protein L9 | 804 | 46 | textmining:803 |
Rv3812 PE_PGRS62 |
PE-PGRS family protein PE_PGRS62 | 658 | 46 | textmining:657 |
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: hypothetical protein
- (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_216593.1)
- Domains: Pfam-A via hmmscan --cut_ga — none above threshold
- 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
28N42 - Curated reference: UniProt P9WLL1 (SwissProt, reviewed; 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 — 9 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002210|Rv2077c| MLATLSQIRAWSTEHLIDAAGYWTETADRWEDVFLQMRNQAHAIAWNGAGGDGLRQRTRADFSTVSGIADQLRRAATIARNGAGTIDAAQRRVMYAVEDAQDAGFNVGEDLSVTDTKTTQPAAVQAARLAQAQALAGDIRLRVGQLVAAENEVSGQLAATTGDVGNVRFAGAPVVAHSAVQLVDFFKQDGPTPPPPGAPHPSGGADGPYSDPITSMMLPPAGTEAPVSDATKRWVDNMVNELAARPPDDPIAVEARRLAFQALHRPCNSAEWTAAVAGFAGSSAGVVGTALAIPAGPADWALLGAALLGVGGSGAAVVNCATK