Rv3527 Still unknown · low auto-curated
H37Rv Rv3527 · MTBC0 mtbc0_003743 ·
149 aa · 3987282–3987731 (+) ·
RefSeq NP_218044.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical 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 |
I6XHG6
TrEMBL · unreviewed
· Predicted
|
|---|---|
| UniProt name | Uncharacterized protein |
UniProt still lists this protein as Uncharacterized protein; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 28XG2 |
|---|
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 | 0.331 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 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).
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: kshA (3-ketosteroid-9-alpha-monooxygenase oxygenase subunit), high confidence from genomic context alone (score 977 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) |
|---|---|---|---|---|
Rv3526 kshA |
3-ketosteroid-9-alpha-monooxygenase oxygenase subunit | 979 | 977 ctx | neighborhood:882 cooccurence:692 coexpression:409 |
Rv3525c |
siderophore-binding protein | 780 | 779 ctx | neighborhood:778 |
Rv3542c chsH2 hyp |
hypothetical protein | 743 | 744 ctx | cooccurence:742 |
Rv3568c hsaC |
extradiol dioxygenase | 754 | 739 ctx | cooccurence:696 |
Rv2743c hyp |
hypothetical protein | 736 | 737 ctx | cooccurence:735 |
Rv3521 hyp |
hypothetical protein | 733 | 733 ctx | cooccurence:716 |
Rv0760c hyp |
hypothetical protein | 703 | 703 ctx | cooccurence:702 |
Rv3574 kstR |
HTH-type transcriptional regulator KstR | 689 | 690 ctx | cooccurence:688 |
Rv3584 lpqE |
lipoprotein LpqE | 686 | 686 ctx | cooccurence:686 |
Rv3541c chsH1 hyp |
hypothetical protein | 677 | 677 ctx | cooccurence:674 |
Rv3635 |
transmembrane protein | 668 | 668 ctx | cooccurence:668 |
Rv0210 hyp |
hypothetical protein | 652 | 652 ctx | cooccurence:652 |
Rv0513 |
transmembrane protein | 649 | 649 ctx | cooccurence:649 |
Rv0882 |
transmembrane protein | 647 | 647 ctx | cooccurence:647 |
Rv3531c hyp |
hypothetical protein | 638 | 638 ctx | cooccurence:540 |
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
- (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_218044.1)
- 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
28XG2 - Curated reference: UniProt I6XHG6 (TrEMBL, unreviewed; Predicted)
- 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 86.1, confident)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
79 functional partner(s); context anchor
kshA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003743|Rv3527| MPDDQPAVPDVDRLARSMLLLHGDHHDHNDSPEQHRTCGSWSKSRDFADDPQRAAAVREASRAERDRYLTSGLQPVDCRFCHVTVTVKRLGPGHTAVQWNTEASRRCAYFTELRARGGDSARTRSCPRLTDSIEHAVAEGYLEHHDPNR