5DT9

Crystal structure of a putative D-Erythronate-4-Phosphate Dehydrogenase from Vibrio cholerae

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF11890	e5dt9A3	A: a+b two layers	X: Dimerization domain of erythronate-4-phosphate dehydrogenase PdxB (From Topology)	H: Dimerization domain of erythronate-4-phosphate dehydrogenase PdxB (From Topology)	T: Dimerization domain of erythronate-4-phosphate dehydrogenase PdxB	F: PF11890	ECOD (1.6)
A	PF02826	e5dt9A1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF02826	ECOD (1.6)
A	PF00389	e5dt9A4	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Formate/glycerate dehydrogenase catalytic domain-like	F: PF00389	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.30.1370.170	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02826	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain (2-Hacid_dh_C)	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain	This domain is inserted into the catalytic domain, the large dehydrogenase and D-lactate dehydrogenase families in SCOP. N-terminal portion of which is represented by family Pfam:PF00389.	Domain
A	PF11890	Domain of unknown function (DUF3410) (DUF3410)	Domain of unknown function (DUF3410)	-	Family
A	PF00389	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain (2-Hacid_dh)	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain	This family represents the largest portion of the catalytic domain of 2-hydroxyacid dehydrogenases as the NAD binding domain is inserted within the structural domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Erythronate-4-phosphate dehydrogenase	oxidoreductase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors catalytic activity 4-phosphoerythronate dehydrogenase activity NAD binding binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors catalytic activity 4-phosphoerythronate dehydrogenase activity NAD binding binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding protein binding protein dimerization activity	cellular biosynthetic process organic hydroxy compound metabolic process organonitrogen compound biosynthetic process vitamin biosynthetic process pyridoxine biosynthetic process organic substance metabolic process organic substance biosynthetic process pyridine-containing compound metabolic process small molecule metabolic process water-soluble vitamin metabolic process vitamin B6 biosynthetic process organonitrogen compound metabolic process water-soluble vitamin biosynthetic process small molecule biosynthetic process cellular biosynthetic process organic hydroxy compound metabolic process organonitrogen compound biosynthetic process vitamin biosynthetic process pyridoxine biosynthetic process organic substance metabolic process organic substance biosynthetic process pyridine-containing compound metabolic process small molecule metabolic process water-soluble vitamin metabolic process vitamin B6 biosynthetic process organonitrogen compound metabolic process water-soluble vitamin biosynthetic process small molecule biosynthetic process cellular metabolic process pyridine-containing compound biosynthetic process vitamin metabolic process organic cyclic compound metabolic process pyridoxine metabolic process biosynthetic process organic hydroxy compound biosynthetic process organic cyclic compound biosynthetic process metabolic process vitamin B6 metabolic process cellular process aldehyde biosynthetic process pyridoxal phosphate biosynthetic process cellular aldehyde metabolic process phosphate-containing compound metabolic process phosphorus metabolic process 'de novo' pyridoxal 5'-phosphate biosynthetic process organophosphate metabolic process organophosphate biosynthetic process pyridoxal phosphate metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR038251	PdxB, dimerisation domain superfamily	Homologous Superfamily
A	IPR006139	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain	Domain
A	IPR020921	Erythronate-4-phosphate dehydrogenase	Family
A	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A	IPR024531	Erythronate-4-phosphate dehydrogenase, dimerisation domain	Domain
A	IPR029753	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain conserved site	Conserved Site
A	IPR006140	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding 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.