2xb0

DNA-binding domain from Saccharomyces cerevisiae chromatin- remodelling protein Chd1

Method: X-RAY DIFFRACTION Dmax: 81.9 Å Quality: GOOD

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

CHROMO DOMAIN-CONTAINING PROTEIN 1

SACCHAROMYCES CEREVISIAE

UniProt P32657

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain X; UniProt 1009–1274 Fragment:DNA BINDING DOMAIN, RESIDUES 1009-1274 GOL GLYCEROL × 2 CL CHLORIDE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.5;0.1 M TRIS, PH 8.5, 28% PEG 4K, 0.35 M MGCL2 Resolution 2.00 Å R-free 0.248

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

17 other PDB entries and 20 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CHD1_YEAST
Isoform
PDB entities 1
Chains and sequence ranges Author chain X; PDBConstruct 5–270; UniProt 1009–1274

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.

SAXS scattering curve SAXS Profile

SAXS profile for 2xb0

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2xb0
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2xb0
Deposition date deposition_date2010-04-01
Structure title titleDNA-binding domain from Saccharomyces cerevisiae chromatin- remodelling protein Chd1
Keywords keywordsHYDROLASE, DNA-BINDING PROTEIN, TRANSCRIPTION, CHROMATIN REGULATOR; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier24.17
Radius of gyration Rg (electron density) rg_electron23.47
Forward intensity I(0) i011620300.00
Molecular weight molecular_weight26324.0 kDa
Excluded volume excluded_volume33346 ų
Envelope volume envelope_volume45750 ų
Hydration-shell volume shell_volume17707 ų
Envelope diameter envelope_diameter85.6
Shell Rg shell_rg28.03
Envelope Rg envelope_rg23.63
Shape Rg shape_rg23.44
Total Rg total_rg24.24
Total atoms total_atoms3741
Residues n_residues233
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax81.9
Rg (real space) rg_real24.29
Rg uncertainty (real space) rg_real_error0.69
I(0) (real space) i0_real1.1620e+07
I(0) uncertainty (real space) i0_real_error1.6030e+05
Rg (reciprocal space) rg_reciprocal24.26
I(0) (reciprocal space) i0_reciprocal11620000.0000
Solution quality estimate total_estimate0.8669
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary23.0
Skewness Skewness skewness0.400
Kurtosis Kurtosis kurtosis-0.365
Angular range angular_range— – 0.3300 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2087000.0000
Real-space data points n_real_points65
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.843; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.834; Smooth: 0.901

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id2xb0X01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1440
Domain ID domain_id2xb0X02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily60 — Homeodomain-like

8. Citations (1)

9. Files and Curves (10)