7B9K | pdb_00007b9k

Cryo-EM structure of the dihydrolipoyl transacetylase cubic core of the E. coli pyruvate dehydrogenase complex including lipoyl domains

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)
X	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
W	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
V	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
U	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
T	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Single hybrid motif	8043100	3001880	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)
X	2-oxoacid_dh	e7b9kX1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
X	Biotin_lipoyl	e7b9kX2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
W	2-oxoacid_dh	e7b9kW1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
W	Biotin_lipoyl	e7b9kW2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
V	2-oxoacid_dh	e7b9kV1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
V	Biotin_lipoyl	e7b9kV2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
U	2-oxoacid_dh	e7b9kU1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
U	Biotin_lipoyl	e7b9kU2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
T	2-oxoacid_dh	e7b9kT1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
T	Biotin_lipoyl	e7b9kT2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
S	2-oxoacid_dh	e7b9kS1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
S	Biotin_lipoyl	e7b9kS2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
R	2-oxoacid_dh	e7b9kR1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
R	Biotin_lipoyl	e7b9kR2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
Q	2-oxoacid_dh	e7b9kQ1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
Q	Biotin_lipoyl	e7b9kQ2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
P	2-oxoacid_dh	e7b9kP1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
P	Biotin_lipoyl	e7b9kP2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
O	2-oxoacid_dh	e7b9kO1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
O	Biotin_lipoyl	e7b9kO2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
N	2-oxoacid_dh	e7b9kN1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
N	Biotin_lipoyl	e7b9kN2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
M	2-oxoacid_dh	e7b9kM1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
M	Biotin_lipoyl	e7b9kM2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
L	2-oxoacid_dh	e7b9kL1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
L	Biotin_lipoyl	e7b9kL2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
K	2-oxoacid_dh	e7b9kK1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
K	Biotin_lipoyl	e7b9kK2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
J	2-oxoacid_dh	e7b9kJ1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
J	Biotin_lipoyl	e7b9kJ2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
I	2-oxoacid_dh	e7b9kI1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
I	Biotin_lipoyl	e7b9kI2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
H	2-oxoacid_dh	e7b9kH1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
H	Biotin_lipoyl	e7b9kH2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
G	2-oxoacid_dh	e7b9kG1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
G	Biotin_lipoyl	e7b9kG2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
F	2-oxoacid_dh	e7b9kF1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
F	Biotin_lipoyl	e7b9kF2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
E	2-oxoacid_dh	e7b9kE1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
E	Biotin_lipoyl	e7b9kE2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
D	2-oxoacid_dh	e7b9kD1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
D	Biotin_lipoyl	e7b9kD2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
C	2-oxoacid_dh	e7b9kC1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
C	Biotin_lipoyl	e7b9kC2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
B	2-oxoacid_dh	e7b9kB1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
B	Biotin_lipoyl	e7b9kB2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	ECOD (1.6)
A	2-oxoacid_dh	e7b9kA1	A: a+b complex topology	X: CoA-dependent acyltransferases (From Topology)	H: CoA-dependent acyltransferases (From Topology)	T: CoA-dependent acyltransferases	F: 2-oxoacid_dh	ECOD (1.6)
A	Biotin_lipoyl	e7b9kA2	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: Biotin_lipoyl	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, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	PF00198	2-oxoacid dehydrogenases acyltransferase (catalytic domain) (2-oxoacid_dh)	2-oxoacid dehydrogenases acyltransferase (catalytic domain)	These proteins contain one to three copies of a lipoyl binding domain followed by the catalytic domain.	Domain

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, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex	acetyltransferase activity acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity fatty acid binding organic acid binding binding ion binding anion binding lipid binding lipoic acid binding carboxylic acid binding heterocyclic compound binding acetyltransferase activity acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity fatty acid binding organic acid binding binding ion binding anion binding lipid binding lipoic acid binding carboxylic acid binding heterocyclic compound binding monocarboxylic acid binding small molecule binding sulfur compound binding catalytic activity, acting on a protein dihydrolipoyllysine-residue acetyltransferase activity S-acetyltransferase activity S-acyltransferase activity	aerobic respiration cellular respiration energy derivation by oxidation of organic compounds oxoacid metabolic process acetyl-CoA metabolic process organic acid metabolic process nucleobase-containing compound metabolic process acyl-CoA metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process acyl-CoA biosynthetic process phosphate-containing compound metabolic process sulfur compound metabolic process small molecule metabolic process aerobic respiration cellular respiration energy derivation by oxidation of organic compounds oxoacid metabolic process acetyl-CoA metabolic process organic acid metabolic process nucleobase-containing compound metabolic process acyl-CoA metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process acyl-CoA biosynthetic process phosphate-containing compound metabolic process sulfur compound metabolic process small molecule metabolic process amide metabolic process phosphorus metabolic process nucleoside phosphate metabolic process pyruvate metabolic process carboxylic acid metabolic process pyruvate decarboxylation to acetyl-CoA primary metabolic process amide biosynthetic process generation of precursor metabolites and energy nucleobase-containing compound biosynthetic process purine-containing compound metabolic process acetyl-CoA biosynthetic process sulfur compound biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process monocarboxylic acid metabolic process catabolic process organic acid catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process small molecule catabolic process pyruvate catabolic process	protein-containing complex catalytic complex oxidoreductase complex transferase complex pyruvate dehydrogenase complex acetyltransferase complex alpha-ketoacid dehydrogenase complex cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR001078	2-oxoacid dehydrogenase acyltransferase, catalytic domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR023213	Chloramphenicol acetyltransferase-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR006256	Dihydrolipoamide acetyltransferase pyruvate dehydrogenase complex	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR036625	E3-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR050743	2-oxoacid dehydrogenase family, E2 component	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR004167	Peripheral subunit-binding domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR011053	Single hybrid motif	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR003016	2-oxo acid dehydrogenase, lipoyl-binding site	Binding Site
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X	IPR000089	Biotin/lipoyl attachment	Domain