1TRK
REFINED STRUCTURE OF TRANSKETOLASE FROM SACCHAROMYCES CEREVISIAE AT 2.0 ANGSTROMS RESOLUTION
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Thiamin diphosphate-binding fold (THDP-binding) | 8036146 | 3001790 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | TK C-terminal domain-like | 8036147 | 3000424 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Thiamin diphosphate-binding fold (THDP-binding) | 8036144 | 3001790 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Thiamin diphosphate-binding fold (THDP-binding) | 8036146 | 3001790 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Thiamin diphosphate-binding fold (THDP-binding) | 8036144 | 3001790 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | TK C-terminal domain-like | 8036147 | 3000424 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | Transketolase_C_1 | e1trkA1 | A: a/b three-layered sandwiches | X: TK C-terminal domain-like (From Topology) | H: TK C-terminal domain-like (From Topology) | T: TK C-terminal domain-like | F: Transketolase_C_1 | ECOD (1.6) |
A | Transketolase_N | e1trkA3 | A: a/b three-layered sandwiches | X: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | H: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | T: Thiamin diphosphate-binding fold (THDP-binding) | F: Transketolase_N | ECOD (1.6) |
A | Transket_pyr | e1trkA2 | A: a/b three-layered sandwiches | X: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | H: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | T: Thiamin diphosphate-binding fold (THDP-binding) | F: Transket_pyr | ECOD (1.6) |
B | Transketolase_C_1 | e1trkB1 | A: a/b three-layered sandwiches | X: TK C-terminal domain-like (From Topology) | H: TK C-terminal domain-like (From Topology) | T: TK C-terminal domain-like | F: Transketolase_C_1 | ECOD (1.6) |
B | Transketolase_N | e1trkB3 | A: a/b three-layered sandwiches | X: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | H: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | T: Thiamin diphosphate-binding fold (THDP-binding) | F: Transketolase_N | ECOD (1.6) |
B | Transket_pyr | e1trkB2 | A: a/b three-layered sandwiches | X: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | H: Thiamin diphosphate-binding fold (THDP-binding) (From Topology) | T: Thiamin diphosphate-binding fold (THDP-binding) | F: Transket_pyr | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 3.40.50.970 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains | CATH (4.3.0) |
A | 3.40.50.920 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | CATH (4.3.0) | |
B | 3.40.50.970 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains | CATH (4.3.0) |
B | 3.40.50.920 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF02779 | Transketolase, pyrimidine binding domain (Transket_pyr) | Transketolase, pyrimidine binding domain | This family includes transketolase enzymes, pyruvate dehydrogenases, and branched chain alpha-keto acid decarboxylases. | Domain | |
PF02780 | Transketolase, C-terminal domain (Transketolase_C) | Transketolase, C-terminal domain | The C-terminal domain of transketolase has been proposed as a regulatory molecule binding site [2]. | Domain | |
PF00456 | Transketolase, thiamine diphosphate binding domain (Transketolase_N) | Transketolase, thiamine diphosphate binding domain | This family includes transketolase enzymes EC:2.2.1.1. and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit Swiss:P37941 EC:1.2.4.4. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR033247 | Transketolase family | Family | |
IPR005474 | Transketolase, N-terminal | Domain | |
IPR029061 | Thiamin diphosphate-binding fold | Homologous Superfamily | |
IPR009014 | Transketolase C-terminal/Pyruvate-ferredoxin oxidoreductase domain II | Homologous Superfamily | |
IPR049557 | Transketolase conserved site | Conserved Site | |
IPR005478 | Transketolase, bacterial-like | Family | |
IPR005475 | Transketolase-like, pyrimidine-binding domain | Domain | |
IPR020826 | Transketolase binding site | Binding Site |
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
Chains | Enzyme Name | Description | Catalytic Residues |
---|---|---|---|
transketolase M-CSA #219 | Transketolase (EC:2.2.1.1) (TK) catalyses the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate and a divalent metal cation as a cofactor. Catalytic activity has been noted with a wide variety of divalent metal ions coordinating the diphosphate group of the cofactor [PMID:9924800] and whilst there is still some debate as to the exact nature of the native metal cation (most of the work on the determination of the mechanism has utilised the magnesium cation), Esakova et al. have determined that the enzyme is more stable in the presence of Ca(II), making this the more likely native metal cation [PMID:16125202] . | EC: 2.2.1.1 (PDB Primary Data) |