Rv1506c Family assigned · medium auto-curated
H37Rv Rv1506c · MTBC0 - ·
166 aa · 1695943–1696443 (-) ·
RefSeq NP_216022.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Contains Methyltransf_25 (PF13649.13), Methyltransf_12 (PF08242.19), Methyltransf_11 (PF08241.19) domain(s); putative function inferred from the domain architecture. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
P71785
SwissProt · reviewed
· Inferred from homology
|
|---|---|
| UniProt name | Putative methyltransferase Rv1506c |
| EC (curated) |
EC 2.1.1.-
|
| Curated function | Probably plays a role in host phagosome maturation arrest, as well as a role in the synthesis of acyltrehalose-containing glycolipids. |
UniProt still lists this protein as Putative methyltransferase Rv1506c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Methyltransferase domain |
| Orthologous group | COG4106 |
| Gene Ontology (66) |
GO:0002682, GO:0002683, GO:0006629, GO:0006643, GO:0006664, GO:0008150, GO:0008152, GO:0008610, GO:0009058, GO:0009247, GO:0009605, GO:0009607 +54 more
|
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 | 0.935 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 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 |
|---|---|---|---|---|
Methyltransf_25 | PF13649.13 | 1.2e-08 | 14–64 | Methyltransferase domain |
Methyltransf_12 | PF08242.19 | 1.3e-07 | 14–79 | Methyltransferase domain |
Methyltransf_11 | PF08241.19 | 8.6e-07 | 14–63 | Methyltransferase domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1503c (Rv1503c, (MTCY277.25c), len: 182 aa. Conserved hypothetical protein, similar to C-terminal region of P27833|RFFA_ECOLI lipopolysaccharide bi), high confidence from genomic context alone (score 838 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) |
|---|---|---|---|---|
Rv1505c hyp |
hypothetical protein | 974 | 947 ctx | neighborhood:781 cooccurence:626 coexpression:409 textmining:527 |
Rv1507c hyp |
hypothetical protein | 914 | 878 ctx | neighborhood:479 cooccurence:761 |
Rv1503c |
Rv1503c, (MTCY277.25c), len: 182 aa. Conserved hypothetical protein, similar to C-terminal region of P27833|RFFA_ECOLI lipopolysaccharide bi | 949 | 838 ctx | neighborhood:518 cooccurence:651 textmining:699 |
Rv1504c |
Rv1504c, (MTCY277.26c), len: 199 aa. Conserved hypothetical protein, similar to N-terminal region of P27833|RFFA_ECOLI lipopolysaccharide bi | 845 | 822 ctx | neighborhood:518 cooccurence:621 |
Rv1502 hyp |
hypothetical protein | 609 | 609 ctx | cooccurence:578 |
Rv3402c hyp |
hypothetical protein | 445 | 376 | |
Rv0218 |
transmembrane protein | 453 | 70 | textmining:437 |
Rv1518 hyp |
hypothetical protein | 525 | 66 | textmining:513 |
Rv1516c |
sugar transferase | 872 | 58 | textmining:870 |
Rv2900c fdhF |
formate dehydrogenase subunit alpha FdhF | 450 | 53 | textmining:443 |
Rv0586 mce2R |
HTH-type transcriptional regulator Mce2R | 516 | 51 | textmining:511 |
Rv2171 lppM |
lipoprotein LppM | 400 | 41 | textmining:400 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): hypothetical protein
- Pfam (hmmscan --cut_ga): Methyltransf_25 PF13649.13 (E=1e-08), Methyltransf_12 PF08242.19 (E=1e-07), Methyltransf_11 PF08241.19 (E=9e-07)
- (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_216022.1)
- Domains: Pfam-A via hmmscan --cut_ga — Methyltransf_25 (PF13649.13), Methyltransf_12 (PF08242.19), Methyltransf_11 (PF08241.19)
- 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
COG4106 - Curated reference: UniProt P71785 (SwissProt, reviewed; 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
Rv1503c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1506c| MRIVNAADPFSINDLGCGYGALLDYLDARGFKTDYTGIDVSPEMVRAAALRFEGRANADFICAARIDREADYSVASGIFNVRLKSLDTEWCAHIEATLDMLNAASRRGFSFNCLTSYSDASKMRDDLYYADPCALFDLCKRRYSKSVALLHDYGLYEFTILVRKAS