Rv1703c Resolved · high auto-curated
H37Rv Rv1703c · MTBC0 mtbc0_001812 ·
249 aa · 1941146–1941895 (-) ·
RefSeq NP_216219.4
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | methyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | O-methyltransferase |
| Revised (this work) | O-methyltransferase. Pfam: Methyltransf_3 (PF01596.24), Methyltransf_24 (PF13578.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
L0TAD5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable O-methyltransferase Rv1703c |
| EC (curated) |
EC 2.1.1.-
|
| Curated function | Specifically methylates an O atom of its substrate. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | O-Methyltransferase |
| Orthologous group | COG4122 |
| EC number |
EC 2.1.1.6
|
| KEGG orthology |
K00545
|
| KEGG pathways |
map00140, map00350, map00965, map01100, map04728
|
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 | 2.012 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 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 |
|---|---|---|---|---|
Methyltransf_3 | PF01596.24 | 6.8e-15 | 55–204 | O-methyltransferase |
Methyltransf_24 | PF13578.13 | 1.5e-11 | 92–203 | Methyltransferase domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: scpB (segregation and condensation protein ScpB), high confidence from genomic context alone (score 709 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3170 aofH |
flavin-containing monoamine oxidase | 939 | 936 | database:900 |
Rv0761c adhB |
alcohol dehydrogenase B | 905 | 905 | database:900 |
Rv1530 adh |
alcohol dehydrogenase | 904 | 905 | database:900 |
Rv1862 adhA |
alcohol dehydrogenase A | 907 | 904 | database:900 |
Rv0162c adhE1 |
zinc-type alcohol dehydrogenase subunit E | 900 | 901 | database:900 |
Rv1710 scpB |
segregation and condensation protein ScpB | 709 | 709 ctx | neighborhood:544 |
Rv2126c PE_PGRS37 |
PE-PGRS family protein PE_PGRS37 | 696 | 696 ctx | cooccurence:696 |
Rv1220c |
methyltransferase | 691 | 691 ctx | cooccurence:691 |
Rv1709 scpA |
segregation and condensation protein ScpA | 679 | 680 ctx | neighborhood:544 |
Rv1704c cycA |
D-serine/alanine/glycine transporter protein CycA | 673 | 673 ctx | neighborhood:664 |
Rv1713 engA |
GTPase Der | 620 | 621 ctx | neighborhood:544 |
Rv3176c mesT |
epoxide hydrolase MesT | 570 | 571 ctx | cooccurence:563 |
Rv1712 cmk |
cytidylate kinase | 565 | 566 ctx | neighborhood:544 |
Rv1711 |
RNA pseudouridine synthase | 562 | 563 ctx | neighborhood:544 |
Rv1708 |
initiation inhibitor protein | 557 | 558 ctx | neighborhood:544 |
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: methyltransferase
- MTBC0 PGAP product: O-methyltransferase
- Pfam (hmmscan --cut_ga): Methyltransf_3 PF01596.24 (E=7e-15), Methyltransf_24 PF13578.13 (E=1e-11)
- (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_216219.4)
- Domains: Pfam-A via hmmscan --cut_ga — Methyltransf_3 (PF01596.24), Methyltransf_24 (PF13578.13)
- 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
COG4122 - Curated reference: UniProt L0TAD5 (SwissProt, reviewed; 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 —
28 functional partner(s); context anchor
scpB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001812|Rv1703c| MIRKARIAPLRWSVWRMAAGIRNITTTGQIGDGREAAAVDYVLAHAGAGNIDDVLATIDKFAYEKSMLINVGDEKGTLLDAAVRRADPALALELGTYLGYGALRIARAAPEARVYSVELAEANASNARRIWAHAGVDDRVVCVVGTIGDGGRTLDALTEHGFATGTLDFVFLDHDKKAYLPDLQSILDRGWLHPGSIVVADNVRVPGAPKYRAYMRRQQGMSWNTIEHKTHLEYQTLVPDLVLESEYLG