1GDH | pdb_00001gdh

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1gdha1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Formate/glycerate dehydrogenases, NAD-domain	D-glycerate dehydrogenase	(Hyphomicrobium methylovorum ) [TaxId: 84 ],	SCOPe (2.08)
A	d1gdha2	Alpha and beta proteins (a/b)	Flavodoxin-like	Formate/glycerate dehydrogenase catalytic domain-like	Formate/glycerate dehydrogenases, substrate-binding domain	D-glycerate dehydrogenase	(Hyphomicrobium methylovorum ) [TaxId: 84 ],	SCOPe (2.08)
B	d1gdhb1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Formate/glycerate dehydrogenases, NAD-domain	D-glycerate dehydrogenase	(Hyphomicrobium methylovorum ) [TaxId: 84 ],	SCOPe (2.08)
B	d1gdhb2	Alpha and beta proteins (a/b)	Flavodoxin-like	Formate/glycerate dehydrogenase catalytic domain-like	Formate/glycerate dehydrogenases, substrate-binding domain	D-glycerate dehydrogenase	(Hyphomicrobium methylovorum ) [TaxId: 84 ],	SCOPe (2.08)

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	D-lactate/D-glycerate dehydrogenase-like	8056164	4000099	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	D-2-hydroxyacid dehydrogenase-like	8056165	3000044	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	D-2-hydroxyacid dehydrogenase-like	8056165	3000044	SCOP2B (2022-06-29)

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	e1gdhA1	A: Rossmann-like	X: Rossmann-related	H: NAD(P)-binding Rossmann-fold domains	T: 2-Hacid_dh_C	F:	ECOD (20:10:01)
A	e1gdhA2	A: Flavodoxin-like	X: Rossmann-related	H: Formate/glycerate dehydrogenase catalytic domain-like	T: 2-Hacid_dh	F:	ECOD (20:10:01)
B	e1gdhB1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: FAD_binding_3	F:	ECOD (20:10:01)
B	e1gdhB2	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: NAD_binding_1	F:	ECOD (20:10:01)

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)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	D-GLYCERATE DEHYDROGENASE	glyoxylate reductase activity oxidoreductase activity glyoxylate reductase (NADPH) 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 NAD binding binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding glyoxylate reductase activity oxidoreductase activity glyoxylate reductase (NADPH) 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 NAD binding binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding hydroxypyruvate reductase (NADH) activity hydroxypyruvate reductase [NAD(P)H] activity	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

Chains	Accession	Name	Type
A, B	IPR006139	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain	Domain
A, B	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B	IPR050223	D-isomer specific 2-hydroxyacid dehydrogenase	Family
A, B	IPR029752	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain conserved site 1	Conserved Site
A, B	IPR029753	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain conserved site	Conserved Site
A, B	IPR006140	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain	Domain

Chains	Enzyme Name	Description	Catalytic Residues
A	glycerate dehydrogenase M-CSA #571	D-Glycerate dehydrogenase (GDH) catalyses the NADH-dependent reduction of hydroxypyruvate to D-glycerate. In the species Hyphomicrobium methylovorum, GDH operates in a specialised serine pathway in which formaldehyde is assimilated into cellular material. This enables methyltrophic bacteria to utilise one carbon compounds as sole sources of carbon and energy.	Defined by 3 residues: ARG:A-239 [auth A-240]GLU:A-268 [auth A-269]HIS:A-286 [auth A-287] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 1.1.1.29 (PDB Primary Data) Search M-CSA Motif + EC 1.1.1.29

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.

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