2xwc

Crystal structure of the DNA binding domain of human TP73 refined at 1.8 A resolution

Method: X-RAY DIFFRACTION Dmax: 64.3 Å Quality: GOOD

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

TUMOUR PROTEIN P73

HOMO SAPIENS

UniProt O15350

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 112–311 Fragment:DNA-BINDING DOMAIN, RESIDUES 112-311 ZN ZINC ION × 4 TAM TRIS(HYDROXYETHYL)AMINOMETHANE × 2 GOL GLYCEROL × 2 X-RAY DIFFRACTION X-ray crystallization conditions:1.2M SODIUM POTASSIUM TARTRATE, 0.25% PEG MME 5000, 0.1M TRIS PH 9 Resolution 1.82 Å R-free 0.228

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.

27 other PDB entries and 47 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name P73_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 2–201; UniProt 112–311

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 2xwc

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id2xwc
Deposition date deposition_date2010-11-03
Structure title titleCrystal structure of the DNA binding domain of human TP73 refined at 1.8 A resolution
Keywords keywordsDNA-BINDING PROTEIN, DNA BINDING PROTEIN; DNA BINDING PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier18.53
Radius of gyration Rg (electron density) rg_electron17.48
Forward intensity I(0) i010095300.00
Molecular weight molecular_weight22840.0 kDa
Excluded volume excluded_volume28314 ų
Envelope volume envelope_volume34296 ų
Hydration-shell volume shell_volume16694 ų
Envelope diameter envelope_diameter66.7
Shell Rg shell_rg23.42
Envelope Rg envelope_rg18.07
Shape Rg shape_rg17.50
Total Rg total_rg18.37
Total atoms total_atoms1598
Residues n_residues204
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 dmax64.3
Rg (real space) rg_real18.46
Rg uncertainty (real space) rg_real_error0.56
I(0) (real space) i0_real1.0100e+07
I(0) uncertainty (real space) i0_real_error1.3500e+05
Rg (reciprocal space) rg_reciprocal18.47
I(0) (reciprocal space) i0_reciprocal10100000.0000
Solution quality estimate total_estimate0.7847
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary24.7
Skewness Skewness skewness0.235
Kurtosis Kurtosis kurtosis-0.227
Angular range angular_range— – 0.4300 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1659000.0000
Real-space data points n_real_points74
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.737; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

7. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2xwca1
Class classb — All beta proteins
Fold Fold foldb.2 — Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily Superfamily superfamilyb.2.5 — p53-like transcription factors
Family Family familyb.2.5.2 — p53 DNA-binding domain-like
Domain ID domain_idd2xwca2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags

CATH v4.4 (1 domains)

Domain ID domain_id2xwcA00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily720

8. Citations (1)

9. Files and Curves (10)