8P5R | pdb_00008p5r

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)
L	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	e8p5rL1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
K	e8p5rK1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
J	e8p5rJ1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
I	e8p5rI1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
H	e8p5rH1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
G	e8p5rG1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Ras	F:	ECOD (20:10:01)
F	e8p5rF1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
E	e8p5rE1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
D	e8p5rD1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
C	e8p5rC1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
B	e8p5rB1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: HIG_1_N	F:	ECOD (20:10:01)
A	e8p5rA1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Ras	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G, H, I, J, K G, H, I, J, K, L	PF00498	FHA domain (FHA)	FHA domain	-	Family
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	This family uses thiamine pyrophosphate as a cofactor. This family includes pyruvate dehydrogenase, 2-oxoglutarate dehydrogenase and 2-oxoisovalerate dehydrogenase.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G, H, I, J, K G, H, I, J, K, L	Glycogen accumulation regulator GarA	-	-	-
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 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 primary metabolic process metabolic process cellular process generation of precursor metabolites and energy	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex oxoglutarate dehydrogenase complex catalytic complex oxidoreductase complex transferase complex tricarboxylic acid cycle heteromeric enzyme complex alpha-ketoacid dehydrogenase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G, H, I, J, K G, H, I, J, K, L	IPR050923	Cellular Process Regulator and RNA Processing Protein	Family
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
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]	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]	IPR031717	2-oxoglutarate dehydrogenase E1 component/KDG, 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]	IPR001017	Dehydrogenase, E1 component	Domain