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1wte

Crystal structure of type II restrcition endonuclease, EcoO109I complexed with cognate DNA

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

EcoO109IR

Escherichia coli

UniProt Q9RPJ3

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(*AP*CP*CP*GP*GP*GP*CP*CP*CP*TP*GP*CP*C)-3' × 1 5'-D(*GP*GP*CP*AP*GP*GP*GP*CP*CP*CP*GP*GP*T)-3' × 1 SODIUM ION × 2 water × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1wtd

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1wte

1 assemblies

View Construct and Data Evidence
UniProt name Q9RPJ3_ECOLI
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 1–272； UniProt 1–272 Author chain B； PDBConstruct 1–272； UniProt 1–272

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_id1wte
Deposition date deposition_date2004-11-22
Structure title titleCrystal structure of type II restrcition endonuclease, EcoO109I complexed with cognate DNA
Keywords keywordsRestriction endonuclease, DNA complex, hydrolase-DNA COMPLEX; hydrolase/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.

1wte__assembly_1__model_1

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

Download this curve (.dat)

1wte__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.

1wte__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）24.60 Å
Rg (electron density)23.72 Å
Total Rg24.50 Å
Atom count4967
Residues570
Excluded volume86843 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1wte__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
1 2 1wte__assembly_1__model_2 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) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1wtea_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.52 — Restriction endonuclease-like
Superfamily Superfamily superfamilyc.52.1 — Restriction endonuclease-like
Family Family familyc.52.1.29 — Restriction endonuclease EcoO109IR
Domain ID domain_idd1wteb_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.52 — Restriction endonuclease-like
Superfamily Superfamily superfamilyc.52.1 — Restriction endonuclease-like
Family Family familyc.52.1.29 — Restriction endonuclease EcoO109IR

CATH v4.4 (4 domains)

Domain ID domain_id1wteA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3250 — type ii restriction endonuclease, domain 1
Homologous superfamily homologous superfamily10 — type ii restriction endonuclease, domain 1
Domain ID domain_id1wteA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1560 — type ii restriction endonuclease, domain 2
Homologous superfamily homologous superfamily10 — type ii restriction endonuclease, domain 2
Domain ID domain_id1wteB01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3250 — type ii restriction endonuclease, domain 1
Homologous superfamily homologous superfamily10 — type ii restriction endonuclease, domain 1
Domain ID domain_id1wteB02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1560 — type ii restriction endonuclease, domain 2
Homologous superfamily homologous superfamily10 — type ii restriction endonuclease, domain 2
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7. Citations (1)