Rv1519 Family assigned · medium auto-curated
H37Rv Rv1519 · MTBC0 - ·
89 aa · 1710733–1711002 (+) ·
RefSeq NP_216035.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Contains DegT_DnrJ_EryC1 (PF01041.24) domain(s); putative function inferred from the domain architecture. |
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 |
P9WLV7
SwissProt · reviewed
· Predicted
|
|---|---|
| UniProt name | Uncharacterized protein Rv1519 |
UniProt still lists this protein as Uncharacterized protein Rv1519; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | vioA |
| eggNOG description | UDP-4-amino-4-deoxy-L-arabinose aminotransferase |
| Orthologous group | COG0399 |
| EC number |
EC 2.6.1.33
|
| KEGG orthology |
K13308, K20429
|
| KEGG pathways |
map00523, map01130
|
| KEGG modules |
M00797
|
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 | 0.0 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 0 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 |
|---|---|---|---|---|
DegT_DnrJ_EryC1 | PF01041.24 | 9.7e-06 | 36–79 | DegT/DnrJ/EryC1/StrS aminotransferase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1520 (sugar transferase), high confidence from genomic context alone (score 779 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) |
|---|---|---|---|---|
Rv1520 |
sugar transferase | 787 | 779 ctx | neighborhood:699 |
Rv1518 hyp |
hypothetical protein | 604 | 589 ctx | neighborhood:510 |
Rv1752 hyp |
hypothetical protein | 573 | 533 | coexpression:506 |
Rv3464 rmlB |
dTDP-glucose 4,6-dehydratase | 526 | 497 | coexpression:479 |
Rv3264c manB |
D-alpha-D-mannose-1-phosphate guanylyltransferase ManB | 524 | 497 | coexpression:480 |
Rv3784 |
dTDP-glucose 4,6-dehydratase | 525 | 496 | coexpression:478 |
Rv1517 hyp |
hypothetical protein | 495 | 494 ctx | neighborhood:494 |
Rv0334 rmlA |
glucose-1-phosphate thymidylyltransferase | 522 | 479 | coexpression:449 |
Rv3402c hyp |
hypothetical protein | 458 | 458 | coexpression:441 |
Rv2047c hyp |
hypothetical protein | 462 | 441 | coexpression:409 |
Rv2386c mbtI |
salicylate synthase | 432 | 432 | coexpression:431 |
Rv1505c hyp |
hypothetical protein | 457 | 424 | |
Rv1516c |
sugar transferase | 430 | 408 | |
Rv3034c |
acetyltransferase | 439 | 404 | |
Rv3404c hyp |
hypothetical protein | 438 | 404 |
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): hypothetical protein
- Pfam (hmmscan --cut_ga): DegT_DnrJ_EryC1 PF01041.24 (E=1e-05)
- (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_216035.1)
- Domains: Pfam-A via hmmscan --cut_ga — DegT_DnrJ_EryC1 (PF01041.24)
- 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
COG0399 - Curated reference: UniProt P9WLV7 (SwissProt, reviewed; Predicted)
- 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 —
34 functional partner(s); context anchor
Rv1520 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1519| MRCGCLACDGVLCANGPGRPRRPALTCTAVATRTLHSLATNAELVESADLTVTEDICSRIVSLPVHDHMAIADVARVVAPFGEGLARGG