Rv1682 Still unknown · low auto-curated
H37Rv Rv1682 · MTBC0 - ·
305 aa · 1906403–1907320 (+) ·
RefSeq NP_216198.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Conserved hypothetical protein; no recognised domain. Function unknown. Foldseek best (non-significant) hit: 8sf7-assembly1_1O 48-nm doublet microtubule from Tetrahymena thermophi (prob 0.02, TM 0.26). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
O33184
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable coiled-coil structural protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
D Cell cycle control, cell division, chromosome partitioning
|
|---|---|
| eggNOG description | coiled-coil structural protein |
| Orthologous group | COG1196 |
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 | 0.484 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 3 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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Structural neighbours (Foldseek on the ESMFold model, exploratory)
ESMFold model confidence: mean pLDDT 86.8 (confident). A confident model makes the fold comparison meaningful.
Best matches against the PDB, ranked by Foldseek homology probability. A high probability / TM-score suggests a shared fold; unless flagged sig (E < 0.01) these are fold hypotheses, not assignments.
| Target | Prob | TM | E-value | Description |
|---|---|---|---|---|
8sf7-assembly1_1O |
0.02 | 0.26 | 9.4e+00 | 8sf7-assembly1_1O 48-nm doublet microtubule from Tetrahymena thermophila strain MEC17 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1733c (transmembrane protein), medium confidence from genomic context alone (score 678 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) |
|---|---|---|---|---|
Rv1733c |
transmembrane protein | 678 | 678 ctx | cooccurence:678 |
Rv0713 |
transmembrane protein | 669 | 669 ctx | cooccurence:669 |
Rv0804 hyp |
hypothetical protein | 627 | 627 ctx | cooccurence:627 |
Rv1680 hyp |
hypothetical protein | 628 | 615 ctx | neighborhood:497 |
Rv3413c rsdA |
anti-sigma-D factor RsdA | 605 | 605 ctx | cooccurence:605 |
Rv0210 hyp |
hypothetical protein | 597 | 598 ctx | cooccurence:595 |
Rv3450c eccB4 |
ESX-4 secretion system protein EccB4 | 590 | 591 ctx | cooccurence:582 |
Rv2209 |
integral membrane protein | 570 | 571 ctx | cooccurence:568 |
Rv0355c PPE8 |
PPE family protein PPE8 | 567 | 568 ctx | cooccurence:565 |
Rv3912 rsmA |
anti-sigma-M factor RsmA | 567 | 567 ctx | cooccurence:566 |
Rv1681 moeX |
molybdopterin biosynthesis protein MoeX | 555 | 555 ctx | neighborhood:497 |
Rv1978 hyp |
hypothetical protein | 554 | 554 ctx | cooccurence:554 |
Rv3903c cpnT hyp |
hypothetical protein | 564 | 551 ctx | cooccurence:530 |
Rv3166c hyp |
hypothetical protein | 541 | 541 ctx | cooccurence:539 |
Rv3448 eccD4 |
ESX-4 secretion system protein EccD4 | 540 | 540 ctx | cooccurence:536 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): hypothetical protein
- Foldseek best: 8sf7-assembly1_1O 48-nm doublet microtubule from Tetrahymena thermophila strain (prob 0.02, E=9e+00, TM=0.26)
- (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_216198.1)
- 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
COG1196 - Curated reference: UniProt O33184 (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)
- Model confidence: ESMFold per-residue pLDDT (mean 86.8, confident)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
69 functional partner(s); context anchor
Rv1733c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1682| MLPQRPNCTKLFRPRRGVSERYRVTTAHNGSAPRFQRTRSGYDPVAVNHYIAELVLRQQAQHCEIETLKAEIASLKDENAALKDTSPSAQAVTDRMAKMLRLAVDEVFQMQSEARAEAATLVSAARDEAEAVRTQKREMLADMNARQRALESEHADVMRRAREEAEQLVAQATAEVERMRVIDARRREKAEQELDAEIIRLRTDAQFQIDDQLQATQQECEKRLGEAKIEADRRLHVADEQIEHGLSEARRTLEEISQRRVGILEQLARIHAQLENIPALLESARHSETEPLQSINGAVAELRAI