8P5R

Crystal structure of full-length, homohexameric 2-oxoglutarate dehydrogenase KGD from Mycobacterium smegmatis in complex with GarA

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2021-05-27)
A	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2021-05-27)
A	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2021-05-27)
B	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2021-05-27)
B	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2021-05-27)
B	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2021-05-27)
C	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2021-05-27)
C	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2021-05-27)
C	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2021-05-27)
D	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2021-05-27)
D	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2021-05-27)
D	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2021-05-27)
E	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2021-05-27)
E	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2021-05-27)
E	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2021-05-27)
F	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2021-05-27)
F	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2021-05-27)
F	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2021-05-27)
G	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2021-05-27)
H	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2021-05-27)
I	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2021-05-27)
J	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2021-05-27)
L	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2021-05-27)
K	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2021-05-27)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF00198	e8p5rA3	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: PF00198	ECOD (1.6)
A	PF16870	e8p5rA4	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: PF16870	ECOD (1.6)
A	PF00676	e8p5rA1	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: PF00676	ECOD (1.6)
A	PF02779	e8p5rA2	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: PF02779	ECOD (1.6)
B	PF00198	e8p5rB2	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: PF00198	ECOD (1.6)
B	PF16870	e8p5rB1	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: PF16870	ECOD (1.6)
B	PF00676	e8p5rB4	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: PF00676	ECOD (1.6)
B	PF02779	e8p5rB3	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: PF02779	ECOD (1.6)
C	PF00198	e8p5rC4	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: PF00198	ECOD (1.6)
C	PF16870	e8p5rC2	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: PF16870	ECOD (1.6)
C	PF00676	e8p5rC1	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: PF00676	ECOD (1.6)
C	PF02779	e8p5rC3	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: PF02779	ECOD (1.6)
D	PF00198	e8p5rD1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: PF00198	ECOD (1.6)
D	PF16870	e8p5rD3	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: PF16870	ECOD (1.6)
D	PF00676	e8p5rD4	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: PF00676	ECOD (1.6)
D	PF02779	e8p5rD2	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: PF02779	ECOD (1.6)
E	PF00198	e8p5rE2	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: PF00198	ECOD (1.6)
E	PF16870	e8p5rE1	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: PF16870	ECOD (1.6)
E	PF00676	e8p5rE3	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: PF00676	ECOD (1.6)
E	PF02779	e8p5rE4	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: PF02779	ECOD (1.6)
F	PF00198	e8p5rF2	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: PF00198	ECOD (1.6)
F	PF16870	e8p5rF4	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: PF16870	ECOD (1.6)
F	PF00676	e8p5rF3	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: PF00676	ECOD (1.6)
F	PF02779	e8p5rF1	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: PF02779	ECOD (1.6)
G	PF00498	e8p5rG1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)
H	PF00498	e8p5rH1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)
I	PF00498	e8p5rI1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)
J	PF00498	e8p5rJ1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)
L	PF00498	e8p5rL1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)
K	PF00498	e8p5rK1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	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
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	PF16870	2-oxoglutarate dehydrogenase C-terminal (OxoGdeHyase_C)	2-oxoglutarate dehydrogenase C-terminal	-	Family
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	PF00676	Dehydrogenase E1 component (E1_dh)	Dehydrogenase E1 component	-	Family
G, H, I, J, K G, H, I, J, K, L	PF00498	FHA domain (FHA)	FHA domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	Multifunctional 2-oxoglutarate metabolism enzyme	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding 2-oxoglutarate decarboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor oxidoreductase activity oxidoreductase activity, acting on the aldehyde or oxo group of donors cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding 2-oxoglutarate decarboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor oxidoreductase activity oxidoreductase activity, acting on the aldehyde or oxo group of donors oxoglutarate dehydrogenase (succinyl-transferring) activity S-succinyltransferase activity catalytic activity, acting on a protein acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity S-acyltransferase activity dihydrolipoyllysine-residue succinyltransferase activity succinyltransferase activity vitamin binding thiamine pyrophosphate binding organic cyclic compound binding anion binding quaternary ammonium group binding heterocyclic compound binding sulfur compound binding 2-hydroxy-3-oxoadipate synthase activity transketolase or transaldolase activity	aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds cellular metabolic process metabolic process cellular process primary metabolic process generation of precursor metabolites and energy	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol protein-containing complex oxoglutarate dehydrogenase complex catalytic complex oxidoreductase complex tricarboxylic acid cycle heteromeric enzyme complex alpha-ketoacid dehydrogenase complex
G, H, I, J, K G, H, I, J, K, L	Glycogen accumulation regulator GarA	RNA binding binding organic cyclic compound binding nucleic acid binding mRNA binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR001078	2-oxoacid dehydrogenase acyltransferase, catalytic domain	Domain
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR031717	Multifunctional 2-oxoglutarate metabolism enzyme, C-terminal	Domain
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR042179	Multifunctional 2-oxoglutarate metabolism enzyme, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR029061	Thiamin diphosphate-binding fold	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR023213	Chloramphenicol acetyltransferase-like domain superfamily	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR032106	2-oxoglutarate dehydrogenase E1 component, N-terminal domain	Domain
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR005475	Transketolase-like, pyrimidine-binding domain	Domain
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR011603	2-oxoglutarate dehydrogenase E1 component	Family
A, B, C, D, E, A, B, C, D, E, F, M [auth N], N [auth O], O [auth P], P [auth Q]	IPR001017	Dehydrogenase, E1 component	Domain
G, H, I, J, K G, H, I, J, K, L	IPR008984	SMAD/FHA domain superfamily	Homologous Superfamily
G, H, I, J, K G, H, I, J, K, L	IPR000253	Forkhead-associated (FHA) domain	Domain