Rv3755c Family assigned · medium auto-curated
H37Rv Rv3755c · MTBC0 mtbc0_003979 ·
199 aa · 4225410–4226009 (-) ·
RefSeq NP_218272.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | putative glycolipid-binding domain-containing protein |
| Revised (this work) | Putative glycolipid-binding domain-containing protein. Pfam: Glycolipid_bind (PF06475.19). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O86358
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 | Putative glycolipid-binding |
| Orthologous group | COG3554 |
| KEGG orthology |
K09957
|
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 | 0.202 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 3 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 |
|---|---|---|---|---|
Glycolipid_bind | PF06475.19 | 2.0e-59 | 16–198 | Putative glycolipid-binding |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: proX (glycine betaine/carnitine/choline/L-proline ABC transporter substrate-binding lipoprotein ProX), high confidence from genomic context alone (score 903 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) |
|---|---|---|---|---|
Rv3759c proX |
glycine betaine/carnitine/choline/L-proline ABC transporter substrate-binding lipoprotein ProX | 903 | 903 ctx | neighborhood:881 |
Rv3758c proV |
glycine betaine/carnitine/choline/L-proline ABC transporter ATP-binding protein ProV | 888 | 888 ctx | neighborhood:881 |
Rv3757c proW |
glycine betaine/carnitine/choline/L-proline ABC transporter permease ProW | 884 | 885 ctx | neighborhood:881 |
Rv3756c proZ |
glycine betaine/carnitine/choline/L-proline ABC transporter permease ProZ | 883 | 883 ctx | neighborhood:881 |
Rv3760 |
membrane protein | 769 | 769 ctx | neighborhood:768 |
Rv2171 lppM |
lipoprotein LppM | 676 | 676 ctx | cooccurence:676 |
Rv2739c |
transferase | 643 | 644 ctx | cooccurence:642 |
Rv0531 |
membrane protein | 638 | 638 ctx | cooccurence:637 |
Rv3415c hyp |
hypothetical protein | 609 | 609 ctx | cooccurence:609 |
Rv1638A hyp |
hypothetical protein | 586 | 586 ctx | cooccurence:581 |
Rv3205c hyp |
hypothetical protein | 584 | 584 ctx | cooccurence:580 |
Rv2609c |
membrane protein | 581 | 581 ctx | cooccurence:579 |
Rv3668c |
protease | 572 | 572 ctx | cooccurence:572 |
Rv2418c octT hyp |
hypothetical protein | 562 | 562 ctx | cooccurence:561 |
Rv1083 hyp |
hypothetical protein | 561 | 561 ctx | cooccurence:559 |
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: putative glycolipid-binding domain-containing protein
- Pfam (hmmscan --cut_ga): Glycolipid_bind PF06475.19 (E=2e-59)
- (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_218272.1)
- Domains: Pfam-A via hmmscan --cut_ga — Glycolipid_bind (PF06475.19)
- 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
COG3554 - Curated reference: UniProt O86358 (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 —
46 functional partner(s); context anchor
proX - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003979|Rv3755c| MNAVPSDLTPRVWPAMLTWRAQDISRMESVRVQLSGKRIRANGRIVAAATANNPAFGAHYDLQTDETGATKRFGLTVTLAERERQLAIARDEENMWLVTDHQGERRAAYNGALDIDLVFSPFFNALPIRRLGLHERAESIALPVVYVNVPEMSVDAATVSYTSEGRLDGIKLRSPVADTTVTVDSDGFIVDYPGLAERM