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3od8

Human PARP-1 zinc finger 1 (Zn1) bound to DNA

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

Poly [ADP-ribose] polymerase 1

Homo sapiens

UniProt P09874

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Homooligomer Protein 2 DNA 2 5'-D(*GP*CP*CP*GP*CP*TP*TP*GP*GP*G)-3' × 1 5'-D(*CP*CP*CP*AP*AP*GP*CP*GP*GP*C)-3' × 1 ZINC ION × 2 water × 4 Consistent with all polymers
2 Protein–DNA Homooligomer Protein 2 DNA 2 5'-D(*GP*CP*CP*GP*CP*TP*TP*GP*GP*G)-3' × 1 5'-D(*CP*CP*CP*AP*AP*GP*CP*GP*GP*C)-3' × 1 ZINC ION × 2 water × 4 Consistent with all polymers
3 Protein–DNA Homooligomer Protein 2 DNA 2 5'-D(*GP*CP*CP*GP*CP*TP*TP*GP*GP*G)-3' × 1 5'-D(*CP*CP*CP*AP*AP*GP*CP*GP*GP*C)-3' × 1 ZINC ION × 2 water × 4 Consistent with all polymers
4 Protein–DNA Homooligomer Protein 2 DNA 2 5'-D(*GP*CP*CP*GP*CP*TP*TP*GP*GP*G)-3' × 1 5'-D(*CP*CP*CP*AP*AP*GP*CP*GP*GP*C)-3' × 1 ZINC ION × 2 water × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1uk0 1uk0 1uk1 1uk1 2cok 2cr9 2cs2 2jvn 2l30 2l31 2rcw 3gjw

157 assemblies; showing the first 12

Homodimer
2riq 4zzz 5ha9

3 assemblies

Homotetramer
1wok

1 assemblies

Other homooligomers
2rd6 3l3l

2 assemblies

Heteromeric or nucleic-acid complex
2n8a 3od8 3od8 3od8 3od8 3oda 3oda 3oda 3oda 3odc 3odc 3ode

47 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name PARP1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 22–116； UniProt 2–96 Author chain B； PDBConstruct 22–116； UniProt 2–96 Author chain C； PDBConstruct 22–116； UniProt 2–96 Author chain D； PDBConstruct 22–116； UniProt 2–96 Author chain E； PDBConstruct 22–116； UniProt 2–96 Author chain F； PDBConstruct 22–116； UniProt 2–96 Author chain G； PDBConstruct 22–116； UniProt 2–96 Author chain H； PDBConstruct 22–116； UniProt 2–96

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_id3od8
Deposition date deposition_date2010-08-11
Structure title titleHuman PARP-1 zinc finger 1 (Zn1) bound to DNA
Keywords keywordsprotein-DNA complex, PARP zinc finger, DNA BINDING PROTEIN-DNA complex; DNA BINDING PROTEIN/DNA
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.

3od8__assembly_1__model_1

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

Download this curve (.dat)

3od8__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3od8__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）22.93 Å
Rg (electron density)23.40 Å
Total Rg23.99 Å
Atom count1817
Residues188
Excluded volume30974 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3od8__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 3od8__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 3od8__assembly_3__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 3od8__assembly_4__model_1 tetrameric （4） 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

CATH v4.4 (8 domains)

Domain ID domain_id3od8A00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
Domain ID domain_id3od8B00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
Domain ID domain_id3od8C00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
Domain ID domain_id3od8D00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
Domain ID domain_id3od8E00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
Domain ID domain_id3od8F00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
Domain ID domain_id3od8G00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
Domain ID domain_id3od8H00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1740 — first zn-finger domain of poly(adp-ribose) polymerase-1
Homologous superfamily homologous superfamily10 — Zinc finger, PARP-type
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7. Citations (1)