adoK Family assigned · medium auto-curated
H37Rv Rv2202c · MTBC0 mtbc0_002338 ·
324 aa · 2493210–2494184 (-) ·
RefSeq NP_216718.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | adenosine kinase |
|---|---|
| MTBC0 PGAP re-annotation | carbohydrate kinase family protein |
| Revised (this work) | Carbohydrate kinase family protein. Pfam: PfkB (PF00294.30). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WID5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Adenosine kinase |
| EC (curated) |
EC 2.7.1.20
|
| Curated function | Catalyzes the phosphorylation of adenosine to adenosine monophosphate (AMP). Can also catalyze the phosphorylation of the adenosine analog 2-methyladenosine (methyl-Ado) to methyl-AMP, the first step in the metabolism of this compound to an active form that displays antitubercular activity. Is not active on guanosine, inosine, deoxyadenosine, cytidine, uridine, or thymidine. Prefers dGTP and GTP to ATP as phosphate donors in vitro. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| Preferred name | adoK |
| eggNOG description | Ribokinase |
| Orthologous group | COG0524 |
| EC number |
EC 2.7.1.20
|
| KEGG orthology |
K00856
|
| KEGG pathways |
map00230, map01100
|
| Gene Ontology (109) |
GO:0000166, GO:0000287, GO:0001882, GO:0001883, GO:0003674, GO:0003824, GO:0004001, GO:0005488, GO:0005524, GO:0005525, GO:0005575, GO:0005622 +97 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 | 0.086 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 8 synonymous, 2 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 |
|---|---|---|---|---|
PfkB | PF00294.30 | 3.4e-52 | 15–295 | pfkB family carbohydrate kinase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv2203 (membrane protein), high confidence from genomic context alone (score 758 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2584c apt |
adenine phosphoribosyltransferase | 963 | 948 | database:900 |
Rv0777 purB |
adenylosuccinate lyase PurB | 945 | 922 | database:900 |
Rv0733 adk |
adenylate kinase | 974 | 920 | database:900 textmining:691 |
Rv3393 iunH |
nucleoside hydrolase | 925 | 915 | database:900 |
Rv3313c add |
adenosine deaminase | 991 | 914 | database:900 textmining:901 |
Rv3307 deoD |
purine nucleoside phosphorylase | 938 | 914 | database:900 |
Rv0805 cpdA |
3',5'-cyclic adenosine monophosphate phosphodiesterase CpdA | 906 | 906 | database:900 |
Rv2203 |
membrane protein | 758 | 758 ctx | neighborhood:757 |
Rv1603 hisA |
1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase | 713 | 702 | coexpression:692 |
Rv0498 hyp |
hypothetical protein | 612 | 560 | coexpression:535 |
Rv1752 hyp |
hypothetical protein | 519 | 458 | coexpression:427 |
Rv3248c sahH |
adenosylhomocysteinase | 745 | 452 | textmining:554 |
Rv1392 metK |
S-adenosylmethionine synthetase | 512 | 450 | |
Rv0357c purA |
adenylosuccinate synthetase | 600 | 447 | |
Rv1416 ribH |
6,7-dimethyl-8-ribityllumazine synthase | 513 | 447 | coexpression:429 |
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: adenosine kinase
- MTBC0 PGAP product: carbohydrate kinase family protein
- Pfam (hmmscan --cut_ga): PfkB PF00294.30 (E=3e-52)
- (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_216718.1)
- Domains: Pfam-A via hmmscan --cut_ga — PfkB (PF00294.30)
- 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
COG0524 - Curated reference: UniProt P9WID5 (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 —
43 functional partner(s); context anchor
Rv2203 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002338|Rv2202c|adoK MTIAVTGSIATDHLMRFPGRFSEQLLPEHLHKVSLSFLVDDLVMHRGGVAGNMAFAIGVLGGEVALVGAAGADFADYRDWLKARGVNCDHVLISETAHTARFTCTTDVDMAQIASFYPGAMSEARNIKLADVVSAIGKPELVIIGANDPEAMFLHTEECRKLGLAFAADPSQQLARLSGEEIRRLVNGAAYLFTNDYEWDLLLSKTGWSEADVMAQIDLRVTTLGPKGVDLVEPDGTTIHVGVVPETSQTDPTGVGDAFRAGFLTGRSAGLGLERSAQLGSLVAVLVLESTGTQEWQWDYEAAASRLAGAYGEHAAAEIVAVLA