3K5P | pdb_00003k5p

Crystal structure of amino acid-binding ACT: D-isomer specific 2-hydroxyacid dehydrogenase catalytic domain from Brucella melitensis

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	ACT	e3k5pA1	A: a+b two layers	X: Alpha-beta plaits	H: ACT-like (From Topology)	T: ACT-like	F: ACT	ECOD (1.6)
A	2-Hacid_dh_C	e3k5pA2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: 2-Hacid_dh_C	ECOD (1.6)
A	2-Hacid_dh	e3k5pA3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Formate/glycerate dehydrogenase catalytic domain-like	F: 2-Hacid_dh	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	3.30.70.260	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	ACT domain	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	PF22629	AHAS small subunit-like ACT domain (ACT_AHAS_ss)	AHAS small subunit-like ACT domain	This entry represents the ACT domain found at the N-terminal of acetolactate synthase small subunit from Escherichia coli and similar sequences. This domain is also found at the C-terminal of D-3-phosphoglycerate dehydrogenase, which are closely rela ...	This entry represents the ACT domain found at the N-terminal of acetolactate synthase small subunit from Escherichia coli and similar sequences. This domain is also found at the C-terminal of D-3-phosphoglycerate dehydrogenase, which are closely related [4-7]. Acetolactate synthase small subunit (ILVH) is the regulatory subunit of acetohydroxyacid synthase (AHAS), an enzyme hat catalyses the first step in the biosynthesis of the three branched-chain amino acids [4-7].	Domain
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	D-3-phosphoglycerate dehydrogenase	(S)-2-hydroxyglutarate dehydrogenase activity oxidoreductase activity oxidoreductase activity, acting on CH-OH group of donors catalytic activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor phosphoglycerate dehydrogenase activity NAD binding binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding	small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid biosynthetic process organic acid metabolic process alpha-amino acid metabolic process carboxylic acid biosynthetic process amino acid biosynthetic process biosynthetic process small molecule metabolic process metabolic process cellular process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid biosynthetic process organic acid metabolic process alpha-amino acid metabolic process carboxylic acid biosynthetic process amino acid biosynthetic process biosynthetic process small molecule metabolic process metabolic process cellular process serine family amino acid biosynthetic process alpha-amino acid biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR045865	ACT-like domain	Homologous Superfamily
A	IPR002912	ACT domain	Domain
A	IPR050418	D-isomer specific 2-hydroxyacid dehydrogenase, PdxB subfamily	Family
A	IPR006139	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain	Domain
A	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A	IPR054480	Acetolactate synthase small subunit-like, ACT domain	Domain
A	IPR029752	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain conserved site 1	Conserved Site
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 R01GM157729.