Rv0790c Family assigned · medium auto-curated
H37Rv Rv0790c · MTBC0 mtbc0_000841 ·
242 aa · 888498–889226 (-) ·
RefSeq NP_215305.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | transglutaminase-like domain-containing protein |
| Revised (this work) | Transglutaminase-like domain-containing protein. Pfam: Transglut_core (PF01841.26). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6XWA9
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Transglutaminase-like domain-containing protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| eggNOG description | Transglutaminase-like superfamily |
| Orthologous group | COG1305 |
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 | 0.578 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 5 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.26% of strains (374) · 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 |
|---|---|---|---|---|
Transglut_core | PF01841.26 | 2.9e-18 | 29–152 | Transglutaminase-like superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0792c (transcriptional regulator), high confidence from genomic context alone (score 888 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) |
|---|---|---|---|---|
Rv0791c hyp |
hypothetical protein | 998 | 987 ctx | neighborhood:882 coexpression:860 textmining:870 |
Rv0792c |
transcriptional regulator | 977 | 888 ctx | neighborhood:818 textmining:806 |
Rv0793 |
monooxygenase | 968 | 765 ctx | neighborhood:609 textmining:870 |
Rv0789c hyp |
hypothetical protein | 966 | 753 ctx | neighborhood:750 textmining:870 |
Rv3387 |
transposase | 587 | 587 ctx | cooccurence:585 |
Rv1034c |
Probable transposase (fragment); Rv1034c, (MTCY10G2.15), len: 129 aa. Probable IS1560 transposase fragment, similar to part of Rv3387|E12023 | 550 | 550 ctx | cooccurence:550 |
Rv2961 |
transposase | 544 | 544 ctx | cooccurence:543 |
Rv3386 |
transposase | 518 | 518 ctx | cooccurence:518 |
Rv0977 PE_PGRS16 |
PE-PGRS family protein PE_PGRS16 | 449 | 449 ctx | cooccurence:445 |
Rv3081 hyp |
hypothetical protein | 434 | 434 ctx | cooccurence:429 |
Rv1749c |
integral membrane protein | 429 | 429 ctx | cooccurence:429 |
Rv3727 |
oxidoreductase | 423 | 424 ctx | cooccurence:422 |
Rv1452c PE_PGRS28 |
PE-PGRS family protein PE_PGRS28 | 417 | 418 ctx | cooccurence:414 |
Rv0872c PE_PGRS15 |
PE-PGRS family protein PE_PGRS15 | 412 | 413 ctx | cooccurence:409 |
Rv3531c hyp |
hypothetical protein | 411 | 412 ctx | cooccurence:408 |
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: transglutaminase-like domain-containing protein
- Pfam (hmmscan --cut_ga): Transglut_core PF01841.26 (E=3e-18)
- (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_215305.1)
- Domains: Pfam-A via hmmscan --cut_ga — Transglut_core (PF01841.26)
- 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
COG1305 - Curated reference: UniProt I6XWA9 (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 —
19 functional partner(s); context anchor
Rv0792c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000841|Rv0790c| MTLANNGTGMDHFLTPTEYLDAGHPLVRTTAATLIRDAVSDTERVRRIYYYVRDVPYDVLASFRYLAQGHHRASDVIGHGVAFCMGKASSFVALCRAAGVPARIAFQTIDAPDKEFLSPQVRALWGGRTGRPFPWHSLGEAYLGRRWVKLDATIDAPTAARLGKPYRQEFDGATPIPTVEGTILRENGSYADYPSAVAQWYERIAQSVLKALQSTEVHALVAADEELWTGPPVELADATHRL