SAXSdb — 5yrq

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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA repair protein RAD5,DNA repair protein REV1

Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Homooligomer	Protein 4	water × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	REV1_YEAST
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 39–148； UniProt 876–985 Author chain B； PDBConstruct 39–148； UniProt 876–985 Author chain D； PDBConstruct 39–148； UniProt 876–985 Author chain E； PDBConstruct 39–148； UniProt 876–985

DNA repair protein RAD5,DNA repair protein REV1

Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt P32849

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Homooligomer	Protein 4	water × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	RAD5_YEAST
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 4–19； UniProt 5–20 Author chain B； PDBConstruct 4–19； UniProt 5–20 Author chain D； PDBConstruct 4–19； UniProt 5–20 Author chain E； PDBConstruct 4–19； UniProt 5–20

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_id	5yrq
Deposition date deposition_date	2017-11-09
Structure title title	Crystal structure of Rad5 and Rev1
Keywords keywords	Rad5, DNA damage tolerance, E3 ligase, TLS polymerase, Rev1, DNA BINDING PROTEIN; DNA BINDING PROTEIN
Experimental Method method	X-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.

5yrq__assembly_1__model_1

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

Download this curve (.dat)

5yrq__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

5yrq__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	27.40 Å
Rg (electron density)	26.46 Å
Total Rg	27.20 Å
Atom count	4075
Residues	489
Excluded volume	72907 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`5yrq__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 (2)

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Unit-cell length a length_a	58.589 Å
Unit-cell length b length_b	49.280 Å
Unit-cell length c length_c	103.074 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	92.20 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	8

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	1.999 Å
Low-resolution limit resolution_low	29.133 Å
R factor r_factor	0.2071
R_work r_work	0.2050
R_free r_free	0.2463

Description description	DNA repair protein RAD5,DNA repair protein REV1
Molecular weight formula_weight	16953.3 kDa
EC 编号 ec_number	3.6.4.-,2.7.7.-
Source method src_method	man
Copy count entity_count	4

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,D,E
Atom count atom_count	4229

Crystal structure of Rad5 and Rev1

1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA repair protein RAD5,DNA repair protein REV1

State in the Current Structure

Other States of the Same Protein in the Database

DNA repair protein RAD5,DNA repair protein REV1

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

5yrq__assembly_1__model_1

5yrq__assembly_1__model_1 | I(q)

5yrq__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

7. Citations (1)

Source organism organism	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Common name common_name	;Baker's yeast ;
NCBI taxonomy ID ncbi_taxonomy_id	559292
Host organism host_organism	Escherichia coli 042

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	154

Crystal structure of Rad5 and Rev1

1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA repair protein RAD5,DNA repair protein REV1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

DNA repair protein RAD5,DNA repair protein REV1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

5yrq__assembly_1__model_1

5yrq__assembly_1__model_1 | I(q)

5yrq__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

7. Citations (1)