Rv0528 Resolved · high auto-curated
H37Rv Rv0528 · MTBC0 mtbc0_000556 ·
529 aa · 621762–623351 (+) ·
RefSeq NP_215042.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | cytochrome c biogenesis protein ResB |
| Revised (this work) | Cytochrome c biogenesis protein ResB. Pfam: ResB (PF05140.20). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O06394
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved transmembrane protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| Preferred name | resB |
| eggNOG description | ResB protein required for cytochrome c biosynthesis |
| Orthologous group | COG1333 |
| KEGG orthology |
K07399
|
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 | n/a |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 0 synonymous, 6 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)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
ResB | PF05140.20 | 1.3e-152 | 8–500 | ResB-like family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: ccsA (cytochrome C-type biogenesis protein CcsA), high confidence from genomic context alone (score 997 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0529 ccsA |
cytochrome C-type biogenesis protein CcsA | 997 | 997 ctx | neighborhood:882 cooccurence:754 coexpression:904 |
Rv0527 ccdA |
cytochrome C-type biogenesis protein CcdA | 988 | 984 ctx | neighborhood:833 coexpression:868 |
Rv0526 |
thioredoxin | 983 | 977 ctx | neighborhood:833 coexpression:844 |
Rv0525 hyp |
hypothetical protein | 914 | 914 ctx | neighborhood:820 coexpression:483 |
Rv0524 hemL |
glutamate-1-semialdehyde 2,1-aminomutase | 872 | 855 ctx | neighborhood:820 |
Rv0511 hemD |
uroporphyrin-III C-methyltransferase | 815 | 816 | coexpression:733 |
Rv2194 qcrC |
ubiquinol-cytochrome C reductase cytochrome subunit C | 810 | 785 ctx | cooccurence:758 |
Rv2199c ctaF |
cytochrome c oxidase polypeptide 4 | 763 | 763 ctx | cooccurence:761 |
Rv0514 |
transmembrane protein | 761 | 761 | coexpression:761 |
Rv2195 qcrA |
ubiquinol-cytochrome C reductase rieske iron-sulfur subunit | 756 | 756 ctx | cooccurence:752 |
Rv0530 hyp |
hypothetical protein | 732 | 732 ctx | neighborhood:691 |
Rv2196 qcrB |
ubiquinol-cytochrome C reductase cytochrome subunit B | 761 | 726 ctx | cooccurence:720 |
Rv0102 |
integral membrane protein | 714 | 714 ctx | cooccurence:709 |
Rv1002c pmt |
dolichyl-phosphate-mannose--protein mannosyltransferase | 579 | 580 ctx | cooccurence:577 |
Rv1456c |
antibiotic ABC transporter permease | 569 | 569 ctx | cooccurence:564 |
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: cytochrome c biogenesis protein ResB
- Pfam (hmmscan --cut_ga): ResB PF05140.20 (E=1e-152)
- (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_215042.1)
- Domains: Pfam-A via hmmscan --cut_ga — ResB (PF05140.20)
- 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
COG1333 - Curated reference: UniProt O06394 (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 —
46 functional partner(s); context anchor
ccsA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000556|Rv0528| MWRSLTSMGTALVLLFLLALAAIPGALLPQRGLNAAKVDDYLAAHPLIGPWLDELQAFDVFSSFWFTAIYVLLFVSLVGCLAPRTIEHARSLRATPVAAPRNLARLPKHAHARLAGEPAALAATITGRLRGWRSITRQQGDSVEVSAEKGYLREFGNLVFHFALLGLLVAVAVGKLFGYEGNVIVIADGGPGFCSASPAAFDSFRAGNTVDGTSLHPICVRVNNFQAHYLPSGQATSFAADIDYQADPATADLIANSWRPYRLQVNHPLRVGGDRVYLQGHGYAPTFTVTFPDGQTRTSTVQWRPDNPQTLLSAGVVRIDPPAGSYPNPDERRKHQIAIQGLLAPTEQLDGTLLSSRFPALNAPAVAIDIYRGDTGLDSGRPQSLFTLDHRLIEQGRLVKEKRVNLRAGQQVRIDQGPAAGTVVRFDGAVPFVNLQVSHDPGQSWVLVFAITMMAGLLVSLLVRRRRVWARITPTTAGTVNVELGGLTRTDNSGWGAEFERLTGRLLAGFEARSPDMAEAAAGTGRDVD