guaB3 Family assigned · medium auto-curated
H37Rv Rv3410c · MTBC0 mtbc0_003624 ·
375 aa · 3854222–3855349 (-) ·
RefSeq NP_217927.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | oxidoreductase |
|---|---|
| MTBC0 PGAP re-annotation | GuaB3 family IMP dehydrogenase-related protein |
| Revised (this work) | GuaB3 family IMP dehydrogenase-related protein. Pfam: IMPDH (PF00478.32), FMN_dh (PF01070.25). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WKI5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized oxidoreductase Rv3410c |
| EC (curated) |
EC 1.-.-.-
|
| Curated function | Has no inosine-5'-monophosphate dehydrogenase activity. |
UniProt still lists this protein as Uncharacterized oxidoreductase Rv3410c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
F Nucleotide transport and metabolism
|
|---|---|
| Preferred name | guaB3 |
| eggNOG description | IMP dehydrogenase |
| Orthologous group | COG0516 |
| EC number |
EC 1.1.1.205
|
| KEGG orthology |
K00088
|
| KEGG pathways |
map00230, map00983, map01100, map01110
|
| KEGG modules |
M00050
|
| Gene Ontology (77) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005886, GO:0006139, GO:0006163, GO:0006164, GO:0006183, GO:0006725, GO:0006753, GO:0006793 +65 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 | 0.562 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 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 |
|---|---|---|---|---|
IMPDH | PF00478.32 | 5.6e-31 | 17–302 | IMP dehydrogenase / GMP reductase domain |
FMN_dh | PF01070.25 | 1.2e-07 | 181–301 | FMN-dependent dehydrogenase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: guaB2 (inosine-5'-monophosphate dehydrogenase), high confidence from genomic context alone (score 982 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3396c guaA |
GMP synthase | 998 | 997 | coexpression:952 database:900 textmining:497 |
Rv3411c guaB2 |
inosine-5'-monophosphate dehydrogenase | 989 | 982 ctx | neighborhood:789 database:900 textmining:417 |
Rv0357c purA |
adenylosuccinate synthetase | 977 | 971 | coexpression:646 database:900 |
Rv0957 purH |
bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/inosinemonophosphate cyclohydrolase | 947 | 942 | coexpression:422 database:900 |
Rv1341 rdgB |
non-canonical purine NTP pyrophosphatase | 926 | 919 | database:900 |
Rv1843c guaB1 |
inosine-5'-monophosphate dehydrogenase | 988 | 910 | database:900 textmining:877 |
Rv3624c hpt |
hypoxanthine-guanine phosphoribosyltransferase | 920 | 904 | database:900 |
Rv1021 mazG |
nucleoside triphosphate pyrophosphohydrolase | 901 | 901 | database:900 |
Rv3412 hyp |
hypothetical protein | 746 | 746 ctx | neighborhood:744 |
Rv1390 rpoZ |
DNA-directed RNA polymerase subunit omega | 720 | 709 ctx | cooccurence:651 |
Rv1650 pheT |
phenylalanine--tRNA ligase subunit beta | 767 | 696 | coexpression:695 |
Rv3409c choD |
cholesterol oxidase | 720 | 685 ctx | neighborhood:682 |
Rv0667 rpoB |
DNA-directed RNA polymerase subunit beta | 676 | 646 | coexpression:646 |
Rv0734 mapA |
methionine aminopeptidase | 661 | 641 | database:478 |
Rv2861c mapB |
methionine aminopeptidase | 660 | 640 | database:478 |
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: oxidoreductase
- MTBC0 PGAP product: GuaB3 family IMP dehydrogenase-related protein
- Pfam (hmmscan --cut_ga): IMPDH PF00478.32 (E=6e-31), FMN_dh PF01070.25 (E=1e-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_217927.1)
- Domains: Pfam-A via hmmscan --cut_ga — IMPDH (PF00478.32), FMN_dh (PF01070.25)
- 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
COG0516 - Curated reference: UniProt P9WKI5 (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 —
108 functional partner(s); context anchor
guaB2 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003624|Rv3410c|guaB3 MVEIGMGRTARRTYELSEISIVPSRRTRSSKDVSTAWQLDAYRFEIPVVAHPTDALVSPEFAIELGRLGGLGVLNGEGLIGRHLDVEAKIAQLLEAAAADPEPSTAIRLLQELHAAPLNPDLLGAAVARIREAGVTTAVRVSPQNAQWLTPVLVAAGIDLLVIQGTIVSAERVASDGEPLNLKTFISELDIPVVAGGVLDHRTALHLMRTGAAGVIVGYGSTQGVTTTDEVLGISVPMATAIADAAAARRDYLDETGGRYVHVLADGDIHTSGELAKAIACGADAVVLGTPLAESAEALGEGWFWPAAAAHPSLPRGALLQIAVGERPPLARVLGGPSDDPFGGLNLVGGLRRSMAKAGYCDLKEFQKVGLTVGG