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6cfi

Crystal structure of Rad4-Rad23 bound to a 6-4 photoproduct UV lesion

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

DNA repair protein RAD4

Saccharomyces cerevisiae S288c

UniProt P14736

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 UV excision repair protein RAD23 × 1 （P32628） DNA('-D(*TP*TP*GP*AP*CP*TP*CP*AP*AP*CP*AP*TP*CP*CP*AP*AP*AP*GP*CP*TP*AP*CP*AP*A)-') × 1 ;DNA (5'-D(*AP*TP*TP*GP*TP*AP*GP*CP*(T64)P*TP*GP*GP*AP*TP*GP*TP*TP*GP*AP*GP*TP*CP*A)-3') ; × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2m14 2qsf 2qsg 2qsh 4yir 6cfi 6ubf 6ug1 6uin 7k04 7m2u

11 assemblies

View Construct and Data Evidence
UniProt name RAD4_YEAST
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 7–538； UniProt 101–632

UV excision repair protein RAD23

Saccharomyces cerevisiae S288c

UniProt P32628

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 DNA repair protein RAD4 × 1 （P14736） DNA('-D(*TP*TP*GP*AP*CP*TP*CP*AP*AP*CP*AP*TP*CP*CP*AP*AP*AP*GP*CP*TP*AP*CP*AP*A)-') × 1 ;DNA (5'-D(*AP*TP*TP*GP*TP*AP*GP*CP*(T64)P*TP*GP*GP*AP*TP*GP*TP*TP*GP*AP*GP*TP*CP*A)-3') ; × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
2nbu

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1x3w 1x3z 2nbw 2qsf 2qsg 2qsh 3esw 3m62 4yir 6cfi 6ubf 6ug1

13 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RAD23_YEAST
Isoform —
PDB entities 2
Chains and sequence ranges Author chain X； PDBConstruct 3–171； UniProt 230–398

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_id6cfi
Deposition date deposition_date2018-02-15
Structure title titleCrystal structure of Rad4-Rad23 bound to a 6-4 photoproduct UV lesion
Keywords keywordsnucleotide excision repair, DNA damage repair, xeroderma pigmentosum, Ultraviolet, XPC, 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.

6cfi__assembly_1__model_1

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

Download this curve (.dat)

6cfi__assembly_1__model_1 | I(q)

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

6cfi__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）31.94 Å
Rg (electron density)31.28 Å
Total Rg31.87 Å
Atom count10599
Residues595
Excluded volume95013 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6cfi__assembly_1__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 (4)

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6. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id6cfiA01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology260 — Coagulation Factor XIII; Chain A, domain 2
Homologous superfamily homologous superfamily10 — Transglutaminase-like
Domain ID domain_id6cfiA02
Class class2 — Mainly Beta
Architecture architecture20 — Single Sheet
Topology topology20 — Anthopleurin-A
Homologous superfamily homologous superfamily110 — Rad4, beta-hairpin domain BHD1
Domain ID domain_id6cfiA03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology60 — Wheat Germ Agglutinin (Isolectin 2); domain 1
Homologous superfamily homologous superfamily290 — Rad4, beta-hairpin domain BHD2
Domain ID domain_id6cfiX00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily540 — XPC-binding domain
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7. Citations (1)