tkt Resolved · high auto-curated
H37Rv Rv1449c · MTBC0 mtbc0_001551 ·
700 aa · 1637465–1639567 (-) ·
RefSeq NP_215965.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transketolase |
|---|---|
| MTBC0 PGAP re-annotation | transketolase |
| Revised (this work) | Transketolase. Pfam: Transketolase_N (PF00456.27), Transket_pyr (PF02779.30), Transketolase_C_1 (PF22613.2), Transketolase_C (PF02780.26). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WG25
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Transketolase |
| EC (curated) |
EC 2.2.1.1
|
| Curated function | Catalyzes the reversible transfer of a two-carbon ketol group from sedoheptulose-7-phosphate to glyceraldehyde-3-phosphate, producing xylulose-5-phosphate and ribose-5-phosphate. Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| Preferred name | tkt |
| eggNOG description | Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate |
| Orthologous group | COG0021 |
| EC number |
EC 2.2.1.1
|
| KEGG orthology |
K00615
|
| KEGG pathways |
map00030, map00710, map01051, map01100, map01110, map01120, map01130, map01200, map01230
|
| KEGG modules |
M00004, M00007, M00165, M00167
|
| Gene Ontology (16) |
GO:0005575, GO:0005576, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0008150, GO:0016020, GO:0030312, GO:0040007 +4 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 | 0.293 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 14 synonymous, 12 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 |
|---|---|---|---|---|
Transketolase_N | PF00456.27 | 3.1e-143 | 23–358 | Transketolase, thiamine diphosphate binding domain |
Transket_pyr | PF02779.30 | 9.2e-53 | 374–555 | Transketolase, pyrimidine binding domain |
Transketolase_C_1 | PF22613.2 | 2.9e-38 | 569–686 | Transketolase-like TK C-terminal domain |
Transketolase_C | PF02780.26 | 8.8e-13 | 583–690 | Transketolase, C-terminal domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: tal (transaldolase), high confidence from genomic context alone (score 999 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1448c tal |
transaldolase | 999 | 999 ctx | neighborhood:865 coexpression:859 database:900 textmining:745 |
Rv0946c pgi |
glucose-6-phosphate isomerase | 988 | 974 | coexpression:675 database:900 textmining:564 |
Rv1408 rpe |
ribulose-phosphate 3-epimerase | 991 | 973 | coexpression:408 database:900 textmining:719 |
Rv1447c zwf2 |
glucose-6-phosphate 1-dehydrogenase | 982 | 949 ctx | neighborhood:865 coexpression:439 textmining:674 |
Rv0363c fba |
fructose-bisphosphate aldolase | 973 | 948 | coexpression:461 database:900 textmining:511 |
Rv1099c glpX |
fructose 1,6-bisphosphatase | 974 | 945 ctx | fusion:418 database:900 textmining:562 |
Rv1023 eno |
enolase | 967 | 945 | coexpression:642 database:800 textmining:434 |
Rv1017c prsA |
ribose-phosphate pyrophosphokinase | 964 | 944 | coexpression:463 database:900 |
Rv1617 pykA |
pyruvate kinase | 969 | 939 | coexpression:646 database:800 textmining:525 |
Rv3068c pgmA |
phosphoglucomutase PgmA | 954 | 938 | database:900 |
Rv1436 gap |
glyceraldehyde 3-phosphate dehydrogenase | 960 | 934 | coexpression:564 database:800 textmining:429 |
Rv2436 rbsK |
ribokinase RbsK | 937 | 929 | database:900 |
Rv0478 deoC |
2-deoxyribose-5-phosphate aldolase | 938 | 920 | database:900 |
Rv2465c rpiB |
ribose-5-phosphate isomerase B | 959 | 913 | database:900 textmining:549 |
Rv3010c pfkA |
6-phosphofructokinase | 949 | 911 | database:900 textmining:453 |
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: transketolase
- MTBC0 PGAP product: transketolase
- Pfam (hmmscan --cut_ga): Transketolase_N PF00456.27 (E=3e-143), Transket_pyr PF02779.30 (E=9e-53), Transketolase_C_1 PF22613.2 (E=3e-38), Transketolase_C PF02780.26 (E=9e-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_215965.1)
- Domains: Pfam-A via hmmscan --cut_ga — Transketolase_N (PF00456.27), Transket_pyr (PF02779.30), Transketolase_C_1 (PF22613.2), Transketolase_C (PF02780.26)
- 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
COG0021 - Curated reference: UniProt P9WG25 (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 —
161 functional partner(s); context anchor
tal - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001551|Rv1449c|tkt MTTLEEISALTRPRHPDDWTEIDSAAVDTIRVLAADAVQKVGNGHPGTAMSLAPLAYTLFQRTMRHDPSDTHWLGRDRFVLSAGHSSLTLYIQLYLGGFGLELSDIESLRTWGSKTPGHPEFRHTPGVEITTGPLGQGLASAVGMAMASRYERGLFDPDAEPGASPFDHYIYVIASDGDIEEGVTSEASSLAAVQQLGNLIVFYDRNQISIEDDTNIALCEDTAARYRAYGWHVQEVEGGENVVGIEEAIANAQAVTDRPSFIALRTVIGYPAPNLMDTGKAHGAALGDDEVAAVKKIVGFDPDKTFQVREDVLTHTRGLVARGKQAHERWQLEFDAWARREPERKALLDRLLAQKLPDGWDADLPHWEPGSKALATRAASGAVLSALGPKLPELWGGSADLAGSNNTTIKGADSFGPPSISTKEYTAHWYGRTLHFGVREHAMGAILSGIVLHGPTRAYGGTFLQFSDYMRPAVRLAALMDIDTIYVWTHDSIGLGEDGPTHQPIEHLSALRAIPRLSVVRPADANETAYAWRTILARRNGSGPVGLILTRQGVPVLDGTDAEGVARGGYVLSDAGGLQPGEEPDVILIATGSEVQLAVAAQTLLADNDILARVVSMPCLEWFEAQPYEYRDAVLPPTVSARVAVEAGVAQCWHQLVGDTGEIVSIEHYGESADHKTLFREYGFTAEAVAAAAERALDN