whiB2 Family assigned · medium auto-curated
H37Rv Rv3260c · MTBC0 - ·
89 aa · 3639872–3640141 (-) ·
RefSeq NP_217777.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transcriptional regulator WhiB2 |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Transcriptional regulator WhiB2. Pfam: Whib (PF02467.22). |
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 |
O53353
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Transcriptional regulator WhiB2 |
| Curated function | Acts as a transcriptional regulator. Probably redox-responsive. The apo- but not holo-form probably binds DNA (By similarity)..; FUNCTION: The apo-form functions as a chaperone, preventing aggregation or helping in correct refolding of a number of substrates; this activity does not require ATP or the ability to bind a Fe-S cluster. Chaperone activity is insensitive to the redox state of its cysteine residues. The apo-form has no protein disulfide reductase activity. The apo-form binds to its own promoter. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
K Transcription
|
|---|---|
| Preferred name | whiB2 |
| eggNOG description | Acts as a transcriptional regulator. Probably redox- responsive. The apo- but not holo-form probably binds DNA |
| Orthologous group | 2CC1Y |
| KEGG orthology |
K18955
|
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.
Domains (Pfam, hmmscan --cut_ga)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
Whib | PF02467.22 | 2.0e-27 | 21–84 | Transcription factor WhiB |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1830 (HTH-type transcriptional regulator), high confidence from genomic context alone (score 779 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1830 |
HTH-type transcriptional regulator | 843 | 779 ctx | cooccurence:770 |
Rv2901c hyp |
hypothetical protein | 769 | 770 ctx | cooccurence:767 |
Rv1440 secG |
protein-export membrane protein SecG | 767 | 767 ctx | cooccurence:766 |
Rv1390 rpoZ |
DNA-directed RNA polymerase subunit omega | 753 | 754 ctx | cooccurence:749 |
Rv1321 nucS |
endonuclease NucS | 722 | 723 ctx | cooccurence:720 |
Rv1331 clpS |
ATP-dependent Clp protease adapter protein ClpS | 658 | 658 ctx | cooccurence:656 |
Rv3258c hyp |
hypothetical protein | 657 | 658 | coexpression:449 |
Rv3195 hyp |
hypothetical protein | 642 | 642 ctx | cooccurence:642 |
Rv2092c helY |
ATP-dependent DNA helicase HelY | 624 | 624 ctx | cooccurence:624 |
Rv1025 hyp |
hypothetical protein | 622 | 622 ctx | cooccurence:620 |
Rv0525 hyp |
hypothetical protein | 617 | 617 ctx | cooccurence:616 |
Rv2699c hyp |
hypothetical protein | 609 | 610 ctx | cooccurence:606 |
Rv2467 pepN |
aminopeptidase PepN | 593 | 594 ctx | cooccurence:591 |
Rv2745c clgR |
transcriptional regulator ClgR | 568 | 568 ctx | cooccurence:562 |
Rv3220c pdtaS |
two component sensor kinase | 595 | 566 ctx | cooccurence:561 |
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): transcriptional regulator WhiB2
- Pfam (hmmscan --cut_ga): Whib PF02467.22 (E=2e-27)
- (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_217777.1)
- Domains: Pfam-A via hmmscan --cut_ga — Whib (PF02467.22)
- 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
2CC1Y - Curated reference: UniProt O53353 (SwissProt, reviewed; Evidence at protein level)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
45 functional partner(s); context anchor
Rv1830 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv3260c|whiB2 MVPEAPAPFEEPLPPEATDQWQDRALCAQTDPEAFFPEKGGSTREAKKICMGCEVRHECLEYALAHDERFGIWGGLSERERRRLKRGII