Rv0008c Resolved · high auto-curated
H37Rv Rv0008c · MTBC0 - ·
145 aa · 11874–12311 (-) ·
RefSeq NP_214522.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | cell wall synthesis protein CwsA |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Cell wall synthesis protein CwsA. Pfam: CwsA (PF10814.15). |
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 |
P9WJF3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Cell wall synthesis protein CwsA |
| Curated function | Required for regulated cell division, cell wall synthesis and the maintenance of cell shape. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
D Cell cycle control, cell division, chromosome partitioning
|
|---|---|
| Preferred name | cwsA |
| eggNOG description | Required for regulated cell division, cell wall synthesis and the maintenance of cell shape |
| Orthologous group | 29YDV |
| Gene Ontology (16) |
GO:0005575, GO:0005623, GO:0005886, GO:0005887, GO:0008104, GO:0008150, GO:0016020, GO:0016021, GO:0031224, GO:0031226, GO:0033036, GO:0044425 +4 more
|
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 | 0.395 · 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)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
CwsA | PF10814.15 | 6.4e-61 | 9–144 | Cell wall synthesis protein CwsA |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: ppiA (iron-regulated peptidyl-prolyl cis-trans isomerase PpiA), high confidence from genomic context alone (score 770 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0009 ppiA |
iron-regulated peptidyl-prolyl cis-trans isomerase PpiA | 770 | 770 ctx | neighborhood:770 |
Rv0011c crgA |
cell division protein CrgA | 937 | 501 | experimental:500 textmining:879 |
Rv2145c wag31 |
cell wall synthesis protein Wag31 | 980 | 399 | textmining:968 |
Rv3330 dacB1 |
penicillin-binding protein DacB | 520 | 50 | textmining:516 |
Rv2518c ldtB |
L,D-transpeptidase LdtB | 480 | 45 | textmining:479 |
Rv2150c ftsZ |
cell division protein FtsZ | 694 | 44 | textmining:693 |
Rv0016c pbpA |
penicillin-binding protein PbpA | 658 | 44 | textmining:657 |
Rv2748c ftsK |
DNA translocase FtsK | 435 | 44 | textmining:434 |
Rv0015c pknA |
serine/threonine-protein kinase PknA | 406 | 44 | textmining:405 |
Rv2151c ftsQ |
cell division protein FtsQ | 670 | 42 | textmining:670 |
Rv3061c fadE22 |
acyl-CoA dehydrogenase FadE22 | 517 | 42 | textmining:517 |
Rv2921c ftsY |
signal recognition particle receptor FtsY | 432 | 42 | textmining:432 |
Rv0215c fadE3 |
Rv0215c, (MTCY08D5.10c), len: 357 aa. Probable fadE3, acyl- dehydrogenase, similar to many e.g. ACDB_BACSU|P45857 acyl-CoA dehydrogenase fro | 665 | 41 | textmining:665 |
Rv2163c pbpB |
penicillin-binding membrane protein PbpB | 650 | 41 | textmining:650 |
Rv3564 fadE33 |
acyl-CoA dehydrogenase FadE33 | 647 | 41 | textmining:647 |
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): cell wall synthesis protein CwsA
- Pfam (hmmscan --cut_ga): CwsA PF10814.15 (E=6e-61)
- (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_214522.1)
- Domains: Pfam-A via hmmscan --cut_ga — CwsA (PF10814.15)
- 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
29YDV - Curated reference: UniProt P9WJF3 (SwissProt, reviewed; 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 —
24 functional partner(s); context anchor
ppiA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0008c| MSEQVETRLTPRERLTRGLAYSAVGPVDVTRGLLELGVGLGLQSARSTAAGLRRRYREGRLAREVAAAQETLAQELTAAQDVVANLPQALQDARTQRRSKHHLWIFAGIAAAILAGGAVAFSIVRRSSRPEPSPRPPSVEVQPRS