2QCU | pdb_00002qcu

Crystal structure of Glycerol-3-phosphate Dehydrogenase from Escherichia coli

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Flavoreductase-like	8091741	3000055	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Bfd-like	8091739	3002540	SCOP2B (2022-06-29)
A	SCOP2 Family	GlpD C-terminal domain-like	8046312	4005013	SCOP2 (2022-06-29)
A	SCOP2 Family	D-aminoacid oxidase-like	8091740	4000124	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Bfd-like	8091739	3002540	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Flavoreductase-like	8091741	3000055	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Trypsin	e2qcuB2	A: alpha bundles	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: Trypsin	ECOD (develop294)
B	ABC_tran	e2qcuB1	A: alpha bundles	X: alpha/beta-Hydrolases	H: alpha/beta-Hydrolases	T: alpha/beta-Hydrolases	F: ABC_tran	ECOD (develop294)
A	GIDA	e2qcuA10	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: GIDA	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)
B	3.30.9.10	Alpha Beta	2-Layer Sandwich	D-Amino Acid Oxidase	Chain A, domain 2	CATH (4.3.0)
B	1.10.8.870	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
B	6.10.250.1890	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
A	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)
A	3.30.9.10	Alpha Beta	2-Layer Sandwich	D-Amino Acid Oxidase	Chain A, domain 2	CATH (4.3.0)
A	1.10.8.870	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
A	6.10.250.1890	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01266	FAD dependent oxidoreductase (DAO)	FAD dependent oxidoreductase	This family includes various FAD dependent oxidoreductases: Glycerol-3-phosphate dehydrogenase EC:1.1.99.5, Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.	Domain
A, B	PF16901	C-terminal domain of alpha-glycerophosphate oxidase (DAO_C)	C-terminal domain of alpha-glycerophosphate oxidase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Aerobic glycerol-3-phosphate dehydrogenase	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity FAD binding flavin adenine dinucleotide binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding oxidoreductase activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity FAD binding flavin adenine dinucleotide binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding oxidoreductase activity glycerol-3-phosphate dehydrogenase (quinone) activity oxidoreductase activity, acting on CH-OH group of donors oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor catalytic activity electron transfer activity	carbohydrate derivative catabolic process catabolic process carbohydrate derivative metabolic process organophosphate catabolic process glycerol-3-phosphate catabolic process glycerol-3-phosphate metabolic process organophosphate metabolic process phosphate-containing compound metabolic process metabolic process cellular process alditol phosphate metabolic process phosphorus metabolic process aerobic respiration cellular respiration carbohydrate derivative catabolic process catabolic process carbohydrate derivative metabolic process organophosphate catabolic process glycerol-3-phosphate catabolic process glycerol-3-phosphate metabolic process organophosphate metabolic process phosphate-containing compound metabolic process metabolic process cellular process alditol phosphate metabolic process phosphorus metabolic process aerobic respiration cellular respiration energy derivation by oxidation of organic compounds generation of precursor metabolites and energy carbohydrate metabolic process polyol metabolic process alcohol catabolic process polyol catabolic process carbohydrate catabolic process primary metabolic process alcohol metabolic process alditol catabolic process glycerol metabolic process glycerol catabolic process small molecule metabolic process small molecule catabolic process anaerobic respiration	protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex oxidoreductase complex cytoplasm glycerol-3-phosphate dehydrogenase (FAD) complex cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR031656	Alpha-glycerophosphate oxidase, C-terminal	Domain
A, B	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
A, B	IPR000447	FAD-dependent glycerol-3-phosphate dehydrogenase	Family
A, B	IPR038299	Alpha-glycerophosphate oxidase, C-terminal domain superfamily	Homologous Superfamily
A, B	IPR006076	FAD dependent oxidoreductase	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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.