4b4c

Crystal structure of the DNA-binding domain of human CHD1.

Method: X-RAY DIFFRACTION Dmax: 57.8 Å Quality: EXCELLENT

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

CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 1

HOMO SAPIENS

UniProt O14646

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 homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 1119–1327 Fragment:DNA-BINDING DOMAIN, RESIDUES 1119-1327 SO4 SULFATE ION × 2 EDO 1,2-ETHANEDIOL × 8 GOL GLYCEROL × 6 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.5;2M AMMONIUM SULFATE, 0.1M CITRATE PH 3.5 Resolution 1.62 Å R-free 0.226

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 18 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CHD1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 3–211; UniProt 1119–1327

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 4b4c

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4b4c
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4b4c
Deposition date deposition_date2012-07-30
Structure title titleCrystal structure of the DNA-binding domain of human CHD1.
Keywords keywordsCHROMODOMAIN, CHROMATIN-REMODELING, HISTONE ACETYLATION COMPLEX, CHROMATIN REGULATION, TRANSCRIPTION; TRANSCRIPTION
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier18.65
Radius of gyration Rg (electron density) rg_electron17.51
Forward intensity I(0) i08209630.00
Molecular weight molecular_weight21226.0 kDa
Excluded volume excluded_volume26688 ų
Envelope volume envelope_volume31766 ų
Hydration-shell volume shell_volume15580 ų
Envelope diameter envelope_diameter58.0
Shell Rg shell_rg22.99
Envelope Rg envelope_rg17.80
Shape Rg shape_rg17.49
Total Rg total_rg18.49
Total atoms total_atoms1493
Residues n_residues187
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 dmax57.8
Rg (real space) rg_real18.58
Rg uncertainty (real space) rg_real_error0.33
I(0) (real space) i0_real8.2100e+06
I(0) uncertainty (real space) i0_real_error1.0640e+05
Rg (reciprocal space) rg_reciprocal18.59
I(0) (reciprocal space) i0_reciprocal8210000.0000
Solution quality estimate total_estimate0.9089
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary21.4
Skewness Skewness skewness0.206
Kurtosis Kurtosis kurtosis-0.533
Angular range angular_range— – 0.4250 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1549000.0000
Real-space data points n_real_points74
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.938; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.996

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id4b4cA02
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)