Rv1047 Family assigned · medium auto-curated
H37Rv Rv1047 · MTBC0 mtbc0_001123 ·
415 aa · 1176762–1178009 (+) ·
RefSeq NP_215563.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transposase |
|---|---|
| MTBC0 PGAP re-annotation | IS256-like element IS1081 family transposase |
| Revised (this work) | IS256-like element IS1081 family transposase. Pfam: Transposase_mut (PF00872.25). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P96354
TrEMBL · unreviewed
· Inferred from homology
|
|---|---|
| UniProt name | Mutator family transposase |
| Curated function | Required for the transposition of the insertion element. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
L Replication, recombination and repair
|
|---|---|
| eggNOG description | Transposase, mutator |
| Orthologous group | COG3328 |
| KEGG orthology |
K07493
|
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, 1 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 |
|---|---|---|---|---|
Transposase_mut | PF00872.25 | 1.2e-156 | 1–379 | Transposase, Mutator family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1046c (Hypothetical protein; Rv1046c, (MTCY10G2.03), len: 174 aa. Hypothetical unknown protein. Start changed since first submission (-65 aa). This), medium confidence from genomic context alone (score 500 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1199c |
insertion sequence element IS1081 transposase | 860 | 861 | coexpression:860 |
Rv2512c |
insertion sequence element IS1081 transposase | 860 | 861 | coexpression:860 |
Rv3115 |
transposase | 860 | 861 | coexpression:860 |
Rv3023c |
transposase | 852 | 853 | coexpression:852 |
Rv2666 |
Probable transposase for insertion sequence element IS1081 (fragment); Required for the transposition of the insertion element. | 797 | 797 | coexpression:796 |
Rv1046c |
Hypothetical protein; Rv1046c, (MTCY10G2.03), len: 174 aa. Hypothetical unknown protein. Start changed since first submission (-65 aa). This | 500 | 500 ctx | neighborhood:497 |
Rv2347c esxP |
ESAT-6 like protein EsxP | 660 | 55 | textmining:655 |
Rv1198 esxL |
ESAT-6 like protein EsxL | 519 | 55 | textmining:512 |
Rv1197 esxK |
ESAT-6 like protein EsxK | 549 | 54 | textmining:543 |
Rv2346c esxO |
ESAT-6 like protein EsxO | 552 | 51 | textmining:548 |
Rv3531c hyp |
hypothetical protein | 870 | 42 | textmining:870 |
Rv3530c |
oxidoreductase | 870 | 41 | textmining:870 |
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: transposase
- MTBC0 PGAP product: IS256-like element IS1081 family transposase
- Pfam (hmmscan --cut_ga): Transposase_mut PF00872.25 (E=1e-156)
- (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_215563.1)
- Domains: Pfam-A via hmmscan --cut_ga — Transposase_mut (PF00872.25)
- 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
COG3328 - Curated reference: UniProt P96354 (TrEMBL, unreviewed; Inferred from homology)
- 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 —
12 functional partner(s); context anchor
Rv1046c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001123|Rv1047| MTSSHLIDAEQLLADQLAQASPDLLRGLLSTFIAALMGAEADALCGAGYRERSDERSNQRNGYRHRDFDTRAATIDVAIPKLRQGSYFPDWLLQRRKRAERALTSVVATCYLLGVSTRRMERLVETLGVTKLSKSQVSIMAKELDEAVEAFRTRPLDAGPYTFLAADALVLKVREAGRVVGVHTLIATGVNAEGYREILGIQVTSAEDGAGWLAFFRDLVARGLSGVALVTSDAHAGLVAAIGATLPAAAWQRCRTHYAANLMAATPKPSWPWVRTLLHSIYDQPDAESVVAQYDRVLDALTDKLPAVAEHLDTARTDLLAFTAFPKQIWRQIWSNNPQERLNREVRRRTDVVGIFPDRASIIRLVGAVLAEQHDEWIEGRRYLGLEVLTRARAALTSTEEPAKQQTTNTPALTT