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1wpq

Ternary Complex Of Glycerol 3-phosphate Dehydrogenase 1 with NAD and dihydroxyactone

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Glycerol-3-phosphate dehydrogenase [NAD+], cytoplasmic

Homo sapiens

UniProt P21695

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 2 SULFATE ION × 7 1,3-DIHYDROXYACETONEPHOSPHATE × 2 NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1x0x

1 assemblies

Homodimer
1wpq 1x0v 1x0v 1x0x 6e8y 6e8z 6e90 6e90 6pyp

9 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name GPDA_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–349； UniProt 1–348 Author chain B； PDBConstruct 1–349； UniProt 1–348

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id1wpq
Deposition date deposition_date2004-09-10
Structure title titleTernary Complex Of Glycerol 3-phosphate Dehydrogenase 1 with NAD and dihydroxyactone
Keywords keywordsNAD, GPD1, DEHYDROGENASE, DIHYDROXYACTONE COMPLEX, Oxidoreductase; OXIDOREDUCTASE
Experimental Method methodX-RAY DIFFRACTION
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

1wpq__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1wpq__assembly_1__model_1 | I(q)

10-2 10-1 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1wpq__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）27.62 Å
Rg (electron density)26.96 Å
Total Rg27.54 Å
Atom count5391
Residues696
Excluded volume96340 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1wpq__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (5)

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6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd1wpqa1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.0 — automated matches
Domain ID domain_idd1wpqa2
Class classa — All alpha proteins
Fold Fold folda.100 — 6-phosphogluconate dehydrogenase C-terminal domain-like
Superfamily Superfamily superfamilya.100.1 — 6-phosphogluconate dehydrogenase C-terminal domain-like
Family Family familya.100.1.0 — automated matches
Domain ID domain_idd1wpqb1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.0 — automated matches
Domain ID domain_idd1wpqb2
Class classa — All alpha proteins
Fold Fold folda.100 — 6-phosphogluconate dehydrogenase C-terminal domain-like
Superfamily Superfamily superfamilya.100.1 — 6-phosphogluconate dehydrogenase C-terminal domain-like
Family Family familya.100.1.0 — automated matches

CATH v4.4 (4 domains)

Domain ID domain_id1wpqA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1wpqA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1040 — N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
Homologous superfamily homologous superfamily10 — N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
Domain ID domain_id1wpqB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id1wpqB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1040 — N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
Homologous superfamily homologous superfamily10 — N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
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7. Citations (1)