Rv1645c Family assigned · medium auto-curated
H37Rv Rv1645c · MTBC0 mtbc0_001754 ·
351 aa · 1866420–1867475 (-) ·
RefSeq NP_216161.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | oxygenase MpaB family protein |
| Revised (this work) | Oxygenase MpaB family protein. Pfam: MPAB_Lcp_cat (PF09995.16). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P94979
TrEMBL · unreviewed
· Predicted
|
|---|---|
| UniProt name | ER-bound oxygenase mpaB/mpaB'/Rubber oxygenase catalytic domain-containing protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | protein conserved in bacteria |
| Orthologous group | COG3662 |
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 | 0.109 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 1 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.22% of strains (324) · 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 |
|---|---|---|---|---|
MPAB_Lcp_cat | PF09995.16 | 2.9e-69 | 19–251 | ER-bound oxygenase mpaB/B'/Rubber oxygenase, catalytic domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1647 (adenylate cyclase), medium confidence from genomic context alone (score 672 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) |
|---|---|---|---|---|
Rv1647 |
adenylate cyclase | 671 | 672 ctx | neighborhood:670 |
Rv0825c hyp |
hypothetical protein | 654 | 655 ctx | cooccurence:652 |
Rv0910 |
toxin | 653 | 654 ctx | cooccurence:650 |
Rv1919c hyp |
hypothetical protein | 608 | 608 ctx | cooccurence:606 |
Rv0135c |
transcriptional regulator | 580 | 580 ctx | cooccurence:579 |
Rv0276 hyp |
hypothetical protein | 526 | 526 ctx | cooccurence:526 |
Rv1649 pheS |
phenylalanine--tRNA ligase subunit alpha | 512 | 512 ctx | neighborhood:512 |
Rv1546 hyp |
hypothetical protein | 485 | 486 ctx | cooccurence:484 |
Rv2237 hyp |
hypothetical protein | 473 | 474 ctx | cooccurence:472 |
Rv0275c |
transcriptional regulator | 436 | 437 ctx | cooccurence:433 |
Rv1646 PE17 |
PE family protein PE17 | 434 | 434 ctx | neighborhood:434 |
Rv1650 pheT |
phenylalanine--tRNA ligase subunit beta | 431 | 431 ctx | neighborhood:431 |
Rv3584 lpqE |
lipoprotein LpqE | 427 | 427 ctx | cooccurence:427 |
Rv1683 |
bifunctional long-chain acyl-CoA synthase/lipase | 424 | 424 ctx | cooccurence:424 |
Rv3717 hyp |
hypothetical protein | 420 | 420 ctx | cooccurence:417 |
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: oxygenase MpaB family protein
- Pfam (hmmscan --cut_ga): MPAB_Lcp_cat PF09995.16 (E=3e-69)
- (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_216161.1)
- Domains: Pfam-A via hmmscan --cut_ga — MPAB_Lcp_cat (PF09995.16)
- 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
COG3662 - Curated reference: UniProt P94979 (TrEMBL, unreviewed; 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 —
17 functional partner(s); context anchor
Rv1647 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001754|Rv1645c| MTVASRTSADPLGPDSLTWKYFGDLRTGMMGVWIGAIQNMYPELGAGVEEHSILLREPLQRVARSVYPIMGVVYDGDRAAQTGQQIKGYHRTIKGVDAEGRRYHALNPDTFYWAHATFFMLVIKVAEYFCGGLTEAEKHQLFEEHVRWYRMYGMSMRPVPKSWEDFQDYWDRVCRDKLEINQATVDILQMRIPKPRFVLMPTPIWDQLFKPLIAGQRWIAAGLFDPAVREKAGMHWTPGDEVLLRVFGKVVELAFLAVPDEIRLHPRALAAYRRAAGRTRHDAPLVQAPGFMAPPRDRQGLPMHYFPPRSHRFTRSALDPAKALMERAGALVHSTLSLAGVRPARGPSRAA