galK Resolved · high auto-curated
H37Rv Rv0620 · MTBC0 mtbc0_000653 ·
363 aa · 716269–717360 (+) ·
RefSeq NP_215134.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | galactokinase |
|---|---|
| MTBC0 PGAP re-annotation | galactokinase |
| Revised (this work) | Galactokinase. Pfam: GalKase_gal_bdg (PF10509.16), GHMP_kinases_N (PF00288.33), GHMP_kinases_C (PF08544.19). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WN63
SwissProt · reviewed
· Inferred from homology
|
|---|---|
| UniProt name | Galactokinase |
| EC (curated) |
EC 2.7.1.6
|
| Curated function | Catalyzes the transfer of the gamma-phosphate of ATP to D-galactose to form alpha-D-galactose-1-phosphate (Gal-1-P). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| Preferred name | galK |
| eggNOG description | Belongs to the GHMP kinase family. GalK subfamily |
| Orthologous group | COG0153 |
| EC number |
EC 2.7.1.6, EC 2.7.7.12
|
| KEGG orthology |
K00849, K00965
|
| KEGG pathways |
map00052, map00520, map01100, map04917
|
| KEGG modules |
M00362, M00554, M00632
|
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 | 0.705 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 10 synonymous, 18 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.76% of strains (1098) · clonal |
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 |
|---|---|---|---|---|
GalKase_gal_bdg | PF10509.16 | 1.1e-15 | 6–39 | Galactokinase galactose-binding signature |
GHMP_kinases_N | PF00288.33 | 1.3e-15 | 74–160 | GHMP kinases N terminal domain |
GHMP_kinases_C | PF08544.19 | 1.4e-13 | 261–339 | GHMP kinases C terminal |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: galTa (Rv0618, (MTCY19H5.03c), len: 231 aa (probable partial CDS). Probable galTa, first part of galactose-1-phosphate uridylyltransferase, highly ), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0618 galTa |
Rv0618, (MTCY19H5.03c), len: 231 aa (probable partial CDS). Probable galTa, first part of galactose-1-phosphate uridylyltransferase, highly | 999 | 1000 ctx | neighborhood:800 fusion:564 cooccurence:753 coexpression:729 experimental:400 database:900 textmining:880 |
Rv0619 galTb |
Rv0619, (MTCY19H5.02c), len: 181 aa (probable partial CDS). Probable galTb, second part of galactose-1-phosphate uridylyltransferase, highly | 999 | 998 ctx | neighborhood:800 fusion:610 cooccurence:756 coexpression:732 experimental:400 database:500 textmining:703 |
Rv1752 hyp |
hypothetical protein | 831 | 803 | experimental:768 |
Rv0648 |
alpha-mannosidase | 735 | 735 | coexpression:735 |
Rv0745 hyp |
hypothetical protein | 731 | 731 | coexpression:731 |
Rv0186 bglS |
beta-glucosidase BglS | 571 | 572 ctx | cooccurence:561 |
Rv0579 hyp |
hypothetical protein | 544 | 544 ctx | neighborhood:544 |
Rv3575c |
LacI family transcriptional regulator | 627 | 513 | |
Rv0617 vapC29 |
ribonuclease VapC29 | 499 | 500 ctx | neighborhood:500 |
Rv0616A vapB29 |
antitoxin VapB29 | 499 | 500 ctx | neighborhood:500 |
Rv2471 aglA |
alpha-glucosidase AglA | 507 | 459 | |
Rv2422 hyp |
hypothetical protein | 457 | 458 | coexpression:458 |
Rv0650 |
sugar kinase | 523 | 457 | |
Rv0408 pta |
phosphate acetyltransferase | 588 | 421 | |
Rv3464 rmlB |
dTDP-glucose 4,6-dehydratase | 481 | 419 | coexpression:419 |
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: galactokinase
- MTBC0 PGAP product: galactokinase
- Pfam (hmmscan --cut_ga): GalKase_gal_bdg PF10509.16 (E=1e-15), GHMP_kinases_N PF00288.33 (E=1e-15), GHMP_kinases_C PF08544.19 (E=1e-13)
- (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_215134.1)
- Domains: Pfam-A via hmmscan --cut_ga — GalKase_gal_bdg (PF10509.16), GHMP_kinases_N (PF00288.33), GHMP_kinases_C (PF08544.19)
- 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
COG0153 - Curated reference: UniProt P9WN63 (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 —
32 functional partner(s); context anchor
galTa - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000653|Rv0620|galK MTVSYGAPGRVNLIGEHTDYNLGFALPIALPRRTVVTFTPEHTGAITARSDRADGSARIPLDTTPGQVTGWAAYAAGAIWALRGAGHPVPGGAMSITSDVEIGSGLSSSAALIGAVLGAVGAATGTRIDRLERARLAQRAENDYVGAPTGLLDHLAALFGAPKTALLIDFRDITVRPVAFDPDACDVVLLLMDSRARHRHAGGEYALRRASCERAAADLGVSSLRAVQDRGLAALGAIADPIDARRARHVLTENQRVLDFAAALADSDFTAAGQLLTASHESMREDFAITTERIDLIAESAVRAGALGARMTGGGFGGAVIALVPADRARDVADTVRRAAVTAGYDEPAVSRTYAAPGAAECR