6I2R

Crystal structure of the SucA domain of Mycobacterium smegmatis KGD (alpha-ketoglutarate decarboxylase), mutant R802A, in complex with GarA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d6i2rb_	All beta proteins	SMAD/FHA domain	SMAD/FHA domain	automated matches	automated matches	(Mycolicibacterium smegmatis MC2 155 ) [TaxId: 246196 ],	SCOPe (2.08)
D	d6i2rd_	All beta proteins	SMAD/FHA domain	SMAD/FHA domain	automated matches	automated matches	(Mycolicibacterium smegmatis MC2 155 ) [TaxId: 246196 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093320	3001790	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TK C-terminal domain-like	8093316	3000424	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)	8093320	3001790	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Thiamin diphosphate-binding fold (THDP-binding)	8093319	3001790	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	SMAD/FHA domain-like	8063033	3000137	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)
C	PF16870	e6i2rC1	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	e6i2rC2	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	e6i2rC3	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)
A	PF16870	e6i2rA1	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	e6i2rA3	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	e6i2rA2	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	PF00498	e6i2rB1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)
D	PF00498	e6i2rD1	A: beta sandwiches	X: SMAD/FHA domain (From Topology)	H: SMAD/FHA domain (From Topology)	T: SMAD/FHA domain	F: PF00498	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.10.287.1150	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	TPP helical domain	CATH (utative)
C	3.40.50.970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains	CATH (utative)
C	3.40.50.12470	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (utative)
C	3.40.50.11610	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Multifunctional 2-oxoglutarate metabolism enzyme, C-terminal domain	CATH (utative)
A	1.10.287.1150	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	TPP helical domain	CATH (utative)
A	3.40.50.970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains	CATH (utative)
A	3.40.50.12470	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (utative)
A	3.40.50.11610	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Multifunctional 2-oxoglutarate metabolism enzyme, C-terminal domain	CATH (utative)
B	2.60.200.20	Mainly Beta	Sandwich	Tumour Suppressor Smad4		CATH (utative)
D	2.60.200.20	Mainly Beta	Sandwich	Tumour Suppressor Smad4		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	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, C	PF16870	2-oxoglutarate dehydrogenase C-terminal (OxoGdeHyase_C)	2-oxoglutarate dehydrogenase C-terminal	-	Family
B, D	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, C	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	-
B, D	Glycogen accumulation regulator GarA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR001078	2-oxoacid dehydrogenase acyltransferase, catalytic domain	Domain
A, C	IPR031717	Multifunctional 2-oxoglutarate metabolism enzyme, C-terminal	Domain
A, C	IPR042179	Multifunctional 2-oxoglutarate metabolism enzyme, C-terminal domain superfamily	Homologous Superfamily
A, C	IPR029061	Thiamin diphosphate-binding fold	Homologous Superfamily
A, C	IPR023213	Chloramphenicol acetyltransferase-like domain superfamily	Homologous Superfamily
A, C	IPR032106	2-oxoglutarate dehydrogenase E1 component, N-terminal domain	Domain
A, C	IPR005475	Transketolase-like, pyrimidine-binding domain	Domain
A, C	IPR011603	2-oxoglutarate dehydrogenase E1 component	Family
A, C	IPR001017	Dehydrogenase, E1 component	Domain
B, D	IPR008984	SMAD/FHA domain superfamily	Homologous Superfamily
B, D	IPR000253	Forkhead-associated (FHA) domain	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.