celA1 Resolved · high auto-curated
H37Rv Rv0062 · MTBC0 - ·
380 aa · 65552–66694 (+) ·
RefSeq YP_177689.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | cellulase CelA |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Cellulase CelA. Pfam: Glyco_hydro_6 (PF01341.24). |
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 |
Q79G13
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Glucanase |
| EC (curated) |
EC 3.2.1.-
|
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| Preferred name | celA1 |
| eggNOG description | Belongs to the glycosyl hydrolase family 6 |
| Orthologous group | COG5297 |
| EC number |
EC 3.2.1.4
|
| KEGG orthology |
K01179
|
| KEGG pathways |
map00500, map01100
|
| CAZy family |
GH5, GH9
|
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 | 0.344 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 18 synonymous, 17 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.34% of strains (487) · clonal |
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 |
|---|---|---|---|---|
Glyco_hydro_6 | PF01341.24 | 1.0e-65 | 93–378 | Glycosyl hydrolases family 6 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: celA2b (Rv1090, (MTV017.43), len: 151 aa. Probable celA2b,second part of cellulase (endoglucanase), similar to C-terminus of others e.g. O08468 cell), high confidence from genomic context alone (score 942 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1090 celA2b |
Rv1090, (MTV017.43), len: 151 aa. Probable celA2b,second part of cellulase (endoglucanase), similar to C-terminus of others e.g. O08468 cell | 972 | 942 ctx | cooccurence:441 database:900 textmining:547 |
Rv1089A celA2a |
Rv1089A, len: 34 aa. Probable celA2a, first part of cellulase (endoglucanase), similar to N-terminus of others. This region is a possible MT | 903 | 904 | database:900 |
Rv0186 bglS |
beta-glucosidase BglS | 981 | 902 | database:900 textmining:819 |
Rv0061c hyp |
hypothetical protein | 520 | 520 ctx | neighborhood:520 |
Rv1084 hyp |
hypothetical protein | 536 | 517 | experimental:465 |
Rv0518 hyp |
hypothetical protein | 541 | 512 | experimental:405 |
Rv0452 |
transcriptional regulator | 482 | 482 ctx | cooccurence:479 |
Rv0063 |
oxidoreductase | 468 | 468 ctx | neighborhood:461 |
Rv0517 |
acyltransferase | 446 | 447 ctx | cooccurence:427 |
Rv0067c |
transcriptional regulator | 443 | 443 ctx | cooccurence:443 |
Rv2418c octT hyp |
hypothetical protein | 474 | 441 | experimental:405 |
Rv1075c hyp |
hypothetical protein | 472 | 439 | experimental:405 |
Rv0575c |
oxidoreductase | 425 | 426 ctx | cooccurence:424 |
Rv0048c |
membrane protein | 401 | 402 | |
Rv0315 |
beta-1,3-glucanase | 915 | 386 | textmining:868 |
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): cellulase CelA
- Pfam (hmmscan --cut_ga): Glyco_hydro_6 PF01341.24 (E=1e-65)
- (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 YP_177689.1)
- Domains: Pfam-A via hmmscan --cut_ga — Glyco_hydro_6 (PF01341.24)
- 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
COG5297 - Curated reference: UniProt Q79G13 (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 —
29 functional partner(s); context anchor
celA2b - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0062|celA1 MTRRTGQRWRGTLPGRRPWTRPAPATCRRHLAFVELRHYFARVMSSAIGSVARWIVPLLGVAAVASIGVIADPVRVVRAPALILVDAANPLAGKPFYVDPASAAMVAARNANPPNAELTSVANTPQSYWLDQAFPPATVGGTVARYTGAAQAAGAMPVLTLYGIPHRDCGSYASGGFATGTDYRGWIDAVASGLGSSPATIIVEPDALAMADCLSPDQRQERFDLVRYAVDTLTRDPAAAVYVDAGHSRWLSAEAMAARLNDVGVGRARGFSLNVSNFYTTDEEIGYGEAISGLTNGSHYVIDTSRNGAGPAPDAPLNWCNPSGRALGAPPTTATAGAHADAYLWIKRPGESDGTCGRGEPQAGRFVSQYAIDLAHNAGQ