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5uat

Structure of human PYCR-1 complexed with NADPH

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

Pyrroline-5-carboxylate reductase 1, mitochondrial

Homo sapiens

UniProt P32322

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 10 SULFATE ION × 8 NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 4 DI(HYDROXYETHYL)ETHER × 2 water × 10 Consistent with protein count
2 Protein homooligomer Homooligomer Protein 2 SULFATE ION × 2 water × 2 Consistent with protein count
3 Protein homooligomer Homooligomer Protein 2 SULFATE ION × 2 NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 DI(HYDROXYETHYL)ETHER × 1 water × 2 Consistent with protein count
4 Protein homooligomer Homooligomer Protein 2 NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2ger 2ger 2ger 2ger 2ger 2gr9 2gr9 2gr9 2gr9 2gr9 2gra 2gra

15 assemblies; showing the first 12

Homodimer
2ger 2ger 2gr9 2gr9 2gr9 2gra 2gra 5uat 5uat 5uat 5uau 5uau

22 assemblies; showing the first 12

Homotetramer

None

Other homooligomers
2izz 5uat 5uau 5uav 5uaw 5uax 6xoz 6xp0 6xp1 6xp2 6xp3 8dkg

44 assemblies; showing the first 12

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name P5CR1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 23–322； UniProt 1–300 Author chain B； PDBConstruct 23–322； UniProt 1–300 Author chain C； PDBConstruct 23–322； UniProt 1–300 Author chain D； PDBConstruct 23–322； UniProt 1–300 Author chain E； PDBConstruct 23–322； UniProt 1–300

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_id5uat
Deposition date deposition_date2016-12-20
Structure title titleStructure of human PYCR-1 complexed with NADPH
Keywords keywordsAMINO-ACID BIOSYNTHESIS, OXIDOREDUCTASE, PROLINE BIOSYNTHESIS; 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.

5uat__assembly_1__model_1

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

Download this curve (.dat)

5uat__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

5uat__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）42.74 Å
Rg (electron density)42.01 Å
Total Rg42.29 Å
Atom count19890
Residues2746
Excluded volume354260 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5uat__assembly_1__model_1 decameric （10） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5uat__assembly_2__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 5uat__assembly_3__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 5uat__assembly_4__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) 24 domains

SCOP 2.08 (14 domains)

Domain ID domain_idd5uata1
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_idd5uata2
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_idd5uatb1
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_idd5uatb2
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_idd5uatb3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd5uatc1
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_idd5uatc2
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_idd5uatc3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd5uatd1
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_idd5uatd2
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_idd5uatd3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd5uate1
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_idd5uate2
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_idd5uate3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags

CATH v4.4 (10 domains)

Domain ID domain_id5uatA01
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_id5uatA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3730 — ProC C-terminal domain-like fold
Homologous superfamily homologous superfamily10 — ProC C-terminal domain-like
Domain ID domain_id5uatB01
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_id5uatB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3730 — ProC C-terminal domain-like fold
Homologous superfamily homologous superfamily10 — ProC C-terminal domain-like
Domain ID domain_id5uatC01
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_id5uatC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3730 — ProC C-terminal domain-like fold
Homologous superfamily homologous superfamily10 — ProC C-terminal domain-like
Domain ID domain_id5uatD01
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_id5uatD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3730 — ProC C-terminal domain-like fold
Homologous superfamily homologous superfamily10 — ProC C-terminal domain-like
Domain ID domain_id5uatE01
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_id5uatE02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3730 — ProC C-terminal domain-like fold
Homologous superfamily homologous superfamily10 — ProC C-terminal domain-like
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7. Citations (1)