Rv3179 Family assigned · medium auto-curated
H37Rv Rv3179 · MTBC0 mtbc0_003380 ·
429 aa · 3572466–3573755 (+) ·
RefSeq NP_217695.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | ATP-binding protein |
| Revised (this work) | ATP-binding protein. Pfam: AAA_14 (PF13173.13), DUF4143 (PF13635.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O53329
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Conserved protein |
UniProt still lists this protein as Conserved protein; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Contains PS00017 ATP GTP-binding site motif A (P-loop). This region is a |
| Orthologous group | COG1373 |
| KEGG orthology |
K07133
|
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 | 1.061 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 6 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 |
|---|---|---|---|---|
AAA_14 | PF13173.13 | 4.8e-21 | 27–144 | AAA domain |
DUF4143 | PF13635.13 | 3.8e-42 | 210–371 | Domain of unknown function (DUF4143) |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0919 (GCN5-like N-acetyltransferase), medium confidence from genomic context alone (score 425 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) |
|---|---|---|---|---|
Rv0919 |
GCN5-like N-acetyltransferase | 424 | 425 ctx | cooccurence:421 |
Rv3351c hyp |
hypothetical protein | 521 | 54 | textmining:515 |
Rv1572c |
Conserved hypothetical protein; Rv1572c, (MTCY336.31B), len: 34 aa. Partial ORF,part of REP13E12 repeat element; 3' end of Rv1587c (MTCY336. | 439 | 44 | textmining:438 |
Rv1524 |
glycosyltransferase | 515 | 42 | textmining:515 |
Rv1192 hyp |
hypothetical protein | 540 | 41 | textmining:540 |
Rv2262c |
Conserved hypothetical protein; Catalyzes the phospholipid dependent N-acylation of the N- terminal cysteine of apolipoprotein, the last ste | 510 | 41 | textmining:510 |
Rv2815c |
Probable transposase; Rv2815c, (MTCY16B7.28), len: 108 aa. Putative Transposase for IS6110 (fragment). Identical to many other M. tuberculos | 441 | 41 | textmining:441 |
Rv3651 hyp |
hypothetical protein | 434 | 41 | textmining:434 |
Rv1756c |
Putative transposase; Rv1756c, (MTCY28.22c), len: 328 aa. Putative Transposase subunit for IS6110. Identical to many other M. tuberculosis I | 434 | 41 | textmining:434 |
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: ATP-binding protein
- Pfam (hmmscan --cut_ga): AAA_14 PF13173.13 (E=5e-21), DUF4143 PF13635.13 (E=4e-42)
- (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_217695.1)
- Domains: Pfam-A via hmmscan --cut_ga — AAA_14 (PF13173.13), DUF4143 (PF13635.13)
- 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
COG1373 - Curated reference: UniProt O53329 (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 —
9 functional partner(s); context anchor
Rv0919 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003380|Rv3179| MVHDEAGHELIERHMLEQLREVAEYTRVVLINGPRQAGKTTLLQQLHAELGGWLRSLDVDVERASARADPEGYIMSAPRPTFLDEVQCAGDPLILAIKTATDRDRRPRQFFLSGSTRFLTVPTLSESLAGRVAILDLWPLSVAERSGVRPEIIAQLFTEPQVVLGTEPAPVTRHEYLQLACAGGFPEVVQRPAGRARSRWFSDYLRTVTQRDVRELKRIEQTDRLPRFMRYLAAITAQELNVAEAARVIGVDAGTIRSDLALFETVYLVHRLPAWSRNLTAKIKKRSKIHVVDSGFAAWLRGQSADSLARPTAEGAGPIMETFVINELMKLRAATELEVDLYHFRDRDGREIDCILQTPDSRVVGVEVKASATVNVHDFRHLSFARDRLGDEFITGVLFYTGARALPFGDRLMALPINLLWNGQSVSSL