Rv0178 Resolved · medium auto-curated
H37Rv Rv0178 · MTBC0 mtbc0_000191 ·
244 aa · 209286–210020 (+) ·
RefSeq NP_214692.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | Mce associated membrane protein |
|---|---|
| MTBC0 PGAP re-annotation | Mce associated membrane protein |
| Revised (this work) | Mce associated membrane protein. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O07422
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved Mce associated membrane protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2BKHN |
|---|---|
| KEGG orthology |
K18481
|
| KEGG modules |
M00670
|
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 | 1.747 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 5 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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0175 (Mce associated membrane protein), high confidence from genomic context alone (score 971 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0175 |
Mce associated membrane protein | 992 | 971 ctx | neighborhood:881 coexpression:770 textmining:751 |
Rv0176 |
Mce associated transmembrane protein | 915 | 887 ctx | neighborhood:801 coexpression:455 |
Rv0177 |
Mce associated protein | 882 | 882 ctx | neighborhood:882 |
Rv0174 mce1F |
Mce family protein Mce1F | 924 | 840 ctx | neighborhood:829 textmining:548 |
Rv0171 mce1C |
Mce family protein Mce1C | 856 | 826 ctx | neighborhood:821 |
Rv3301c phoY1 |
phosphate transport system transcriptional regulator PhoY | 812 | 812 | coexpression:812 |
Rv0014c pknB |
serine/threonine-protein kinase PknB | 804 | 805 | coexpression:798 |
Rv3692 moxR2 |
methanol dehydrogenase transcriptional regulator MoxR | 802 | 803 | coexpression:802 |
Rv3806c ubiA |
decaprenyl-phosphate phosphoribosyltransferase | 773 | 773 | coexpression:746 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 769 | 742 | experimental:470 database:508 |
Rv1663 pks17 |
polyketide synthase | 750 | 741 | experimental:458 database:508 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 765 | 737 | experimental:470 database:508 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 764 | 737 | experimental:470 database:508 |
Rv2048c pks12 |
polyketide synthase | 764 | 737 | experimental:470 database:508 |
Rv1527c pks5 |
polyketide synthase | 763 | 735 | experimental:470 database:508 |
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: Mce associated membrane protein
- MTBC0 PGAP product: Mce associated membrane protein
- (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_214692.1)
- Domains: Pfam-A via hmmscan --cut_ga — none above threshold
- 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
2BKHN - Curated reference: UniProt O07422 (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 —
273 functional partner(s); context anchor
Rv0175 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000191|Rv0178| MEDQQSASGDLTQKSVANGESTDTASAATEGHRGEIDAAGEPDERGAAVADSQADEDDSAATAARGGKTRARRSRGRRLAITVGVAAALFVGSAAFAGATVEPYLSERAVVATKLMVARTAANAITTLWTYTPENMDTLADRAANYLSGDFAAQYRRFVDQIAAANKQAKITNDTEVTGAAVESLSGRDAVAIVYTNTTTTSPVTKNIPALKYLSYRLFMKRYDARWLVTRMTTITSLDLTPQV