ino1 Resolved · high auto-curated
H37Rv Rv0046c · MTBC0 mtbc0_000051 ·
367 aa · 50120–51223 (-) ·
RefSeq NP_214560.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | inositol-3-phosphate synthase |
|---|---|
| MTBC0 PGAP re-annotation | inositol-3-phosphate synthase |
| Revised (this work) | Inositol-3-phosphate synthase. Pfam: Inos-1-P_synth (PF01658.23). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WKI1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Inositol-3-phosphate synthase |
| EC (curated) |
EC 5.5.1.4
|
| Curated function | Key enzyme in myo-inositol biosynthesis pathway that catalyzes the conversion of glucose 6-phosphate to 1D-myo-inositol 3-phosphate in a NAD-dependent manner. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolism
|
|---|---|
| Preferred name | ino1 |
| eggNOG description | synthase |
| Orthologous group | COG1260 |
| EC number |
EC 5.5.1.4
|
| KEGG orthology |
K01858
|
| KEGG pathways |
map00521, map00562, map01100, map01130
|
| Gene Ontology (42) |
GO:0003674, GO:0003824, GO:0004512, GO:0005488, GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0006790, GO:0008150, GO:0008152 +30 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 | 0.733 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 7 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 |
|---|---|---|---|---|
Inos-1-P_synth | PF01658.23 | 2.3e-35 | 203–311 | Myo-inositol-1-phosphate synthase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: pgsA1 (CDP-diacylglycerol--inositol 3-phosphatidyltransferase), high confidence from genomic context alone (score 861 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1604 impA |
inositol-monophosphatase ImpA | 983 | 908 | database:900 textmining:827 |
Rv2701c suhB |
inositol-1-monophosphatase SuhB | 959 | 908 | database:900 textmining:582 |
Rv0650 |
sugar kinase | 923 | 901 | database:900 |
Rv3068c pgmA |
phosphoglucomutase PgmA | 946 | 900 | database:900 textmining:489 |
Rv2612c pgsA1 |
CDP-diacylglycerol--inositol 3-phosphatidyltransferase | 896 | 861 ctx | cooccurence:712 database:500 |
Rv0047c hyp |
hypothetical protein | 959 | 841 ctx | neighborhood:802 textmining:755 |
Rv0044c |
oxidoreductase | 781 | 777 ctx | neighborhood:776 |
Rv0045c |
hydrolase | 709 | 710 ctx | neighborhood:671 |
Rv0043c |
HTH-type transcriptional regulator | 696 | 697 ctx | neighborhood:695 |
Rv0486 mshA |
D-inositol 3-phosphate glycosyltransferase | 690 | 672 | database:500 |
Rv0042c |
transcriptional regulator | 521 | 522 ctx | neighborhood:520 |
Rv0048c |
membrane protein | 511 | 511 ctx | neighborhood:508 |
Rv0049 hyp |
hypothetical protein | 449 | 450 ctx | neighborhood:445 |
Rv2610c pimA |
alpha-(1-2)-phosphatidylinositol mannosyltransferase | 483 | 299 | |
Rv3774 echA21 |
enoyl-CoA hydratase EchA21 | 576 | 149 | textmining:524 |
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: inositol-3-phosphate synthase
- MTBC0 PGAP product: inositol-3-phosphate synthase
- Pfam (hmmscan --cut_ga): Inos-1-P_synth PF01658.23 (E=2e-35)
- (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_214560.1)
- Domains: Pfam-A via hmmscan --cut_ga — Inos-1-P_synth (PF01658.23)
- 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
COG1260 - Curated reference: UniProt P9WKI1 (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 —
30 functional partner(s); context anchor
pgsA1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000051|Rv0046c|ino1 MSEHQSLPAPEASTEVRVAIVGVGNCASSLVQGVEYYYNADDTSTVPGLMHVRFGPYHVRDVKFVAAFDVDAKKVGFDLSDAIFASENNTIKIADVAPTNVIVQRGPTLDGIGKYYADTIELSDAEPVDVVQALKEAKVDVLVSYLPVGSEEADKFYAQCAIDAGVAFVNALPVFIASDPVWAKKFTDAGVPIVGDDIKSQVGATITHRVLAKLFEDRGVQLDRTMQLNVGGNMDFLNMLERERLESKKISKTQAVTSNLKREFKTKDVHIGPSDHVGWLDDRKWAYVRLEGRAFGDVPLNLEYKLEVWDSPNSAGVIIDAVRAAKIAKDRGIGGPVIPASAYLMKSPPEQLPDDIARAQLEEFIIG