pgi Resolved · high auto-curated
H37Rv Rv0946c · MTBC0 mtbc0_001009 ·
553 aa · 1062239–1063900 (-) ·
RefSeq NP_215461.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | glucose-6-phosphate isomerase |
|---|---|
| MTBC0 PGAP re-annotation | glucose-6-phosphate isomerase |
| Revised (this work) | Glucose-6-phosphate isomerase. Pfam: PGI (PF00342.25). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WN69
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Glucose-6-phosphate isomerase |
| EC (curated) |
EC 5.3.1.9
|
| Curated function | Catalyzes the reversible isomerization of glucose-6-phosphate to fructose-6-phosphate. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| Preferred name | pgi |
| eggNOG description | Belongs to the GPI family |
| Orthologous group | COG0166 |
| EC number |
EC 5.3.1.9
|
| KEGG orthology |
K01810
|
| KEGG pathways |
map00010, map00030, map00500, map00520, map01100, map01110, map01120, map01130, map01200
|
| KEGG modules |
M00001, M00004, M00114
|
| Gene Ontology (122) |
GO:0003674, GO:0003824, GO:0004347, GO:0005575, GO:0005623, GO:0005886, GO:0005975, GO:0006082, GO:0006090, GO:0006091, GO:0006096, GO:0006139 +110 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 | 0.34 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 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)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
PGI | PF00342.25 | 9.3e-200 | 54–542 | Phosphoglucose isomerase |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3010c pfkA |
6-phosphofructokinase | 995 | 981 | coexpression:779 database:900 textmining:748 |
Rv1438 tpi |
triosephosphate isomerase | 995 | 979 | coexpression:851 database:800 textmining:804 |
Rv3068c pgmA |
phosphoglucomutase PgmA | 990 | 979 | coexpression:749 database:900 textmining:590 |
Rv1449c tkt |
transketolase | 988 | 974 | coexpression:675 database:900 textmining:564 |
Rv1617 pykA |
pyruvate kinase | 991 | 970 | coexpression:822 database:800 textmining:719 |
Rv1448c tal |
transaldolase | 991 | 968 | coexpression:642 database:900 textmining:755 |
Rv1023 eno |
enolase | 993 | 966 | coexpression:799 database:800 textmining:819 |
Rv1436 gap |
glyceraldehyde 3-phosphate dehydrogenase | 981 | 955 | coexpression:724 database:800 textmining:620 |
Rv1447c zwf2 |
glucose-6-phosphate 1-dehydrogenase | 977 | 952 | coexpression:480 database:900 textmining:550 |
Rv1121 zwf1 |
glucose-6-phosphate 1-dehydrogenase | 974 | 952 | coexpression:482 database:900 textmining:497 |
Rv0363c fba |
fructose-bisphosphate aldolase | 978 | 949 | coexpression:735 database:800 textmining:596 |
Rv3255c manA |
mannose-6-phosphate isomerase | 944 | 927 | database:900 |
Rv0489 gpm1 |
2,3-bisphosphoglycerate-dependent phosphoglycerate mutase | 959 | 920 | coexpression:614 database:800 textmining:511 |
Rv2029c pfkB |
6-phosphofructokinase PfkB | 954 | 909 | database:900 textmining:518 |
Rv3436c glmS |
glucosamine--fructose-6-phosphate aminotransferase | 958 | 908 | database:900 textmining:562 |
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: glucose-6-phosphate isomerase
- MTBC0 PGAP product: glucose-6-phosphate isomerase
- Pfam (hmmscan --cut_ga): PGI PF00342.25 (E=9e-200)
- (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_215461.1)
- Domains: Pfam-A via hmmscan --cut_ga — PGI (PF00342.25)
- 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
COG0166 - Curated reference: UniProt P9WN69 (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 — 120 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001009|Rv0946c|pgi MTSAPIPDITATPAWDALRRHHDQIGNTHLRQFFADDPGRGRELTVSVGDLYIDYSKHRVTRETLALLIDLARTAHLEERRDQMFAGVHINTSEDRAVLHTALRLPRDAELVVDGQDVVTDVHAVLDAMGAFTDRLRSGEWTGATGKRISTVVNIGIGGSDLGPVMVYQALRHYADAGISARFVSNVDPADLIATLADLDPATTLFIVASKTFSTLETLTNATAARRWLTDALGDAAVSRHFVAVSTNKRLVDDFGINTDNMFGFWDWVGGRYSVDSAIGLSLMTVIGRDAFADFLAGFHIIDRHFATAPLESNAPVLLGLIGLWYSNFFGAQSRTVLPYSNDLSRFPAYLQQLTMESNGKSTRADGSPVSADTGEIFWGEPGTNGQHAFYQLLHQGTRLVPADFIGFAQPLDDLPTAEGTGSMHDLLMSNFFAQTQVLAFGKTAEEIAADGTPAHVVAHKVMPGNRPSTSILASRLTPSVLGQLIALYEHQVFTEGVVWGIDSFDQWGVELGKTQAKALLPVITGAGSPPPQSDSSTDGLVRRYRTERGRAG