9oam

Room temperature structure of carbonic anhydrase II in complex with vorinostat (co-crystal)

Method: X-RAY DIFFRACTION Dmax: 59.5 Å Quality: GOOD

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

Carbonic anhydrase 2

Homo sapiens

UniProt P00918

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 A; UniProt 1–260 Not recorded ZN ZINC ION × 1 SHH OCTANEDIOIC ACID HYDROXYAMIDE PHENYLAMIDE × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION;pH 8;293 K;50 mM Tris HCl pH 8.0, 1.25 M sodium citrate Resolution 1.40 Å R-free 0.171

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.

1239 other PDB entries and 1272 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CAH2_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–260; UniProt 1–260

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 9oam

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9oam
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9oam
Deposition date deposition_date2025-04-21
最后修订 last_revision2025-10-08
Structure title titleRoom temperature structure of carbonic anhydrase II in complex with vorinostat (co-crystal)
Keywords keywordsCarbonic anhydrase II, Vorinostat, Inhibitor Complex, Zinc Binding Protein, LYASE; LYASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier18.71
Radius of gyration Rg (electron density) rg_electron17.39
Forward intensity I(0) i014582300.00
Molecular weight molecular_weight29202.0 kDa
Excluded volume excluded_volume36735 ų
Envelope volume envelope_volume41431 ų
Hydration-shell volume shell_volume19319 ų
Envelope diameter envelope_diameter61.7
Shell Rg shell_rg24.18
Envelope Rg envelope_rg17.78
Shape Rg shape_rg17.36
Total Rg total_rg18.51
Total atoms total_atoms2068
Residues n_residues257
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 dmax59.5
Rg (real space) rg_real18.56
Rg uncertainty (real space) rg_real_error0.28
I(0) (real space) i0_real1.4580e+07
I(0) uncertainty (real space) i0_real_error1.6080e+05
Rg (reciprocal space) rg_reciprocal18.58
I(0) (reciprocal space) i0_reciprocal14580000.0000
Solution quality estimate total_estimate0.8889
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary24.4
Skewness Skewness skewness0.069
Kurtosis Kurtosis kurtosis-0.455
Angular range angular_range— – 0.4250 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2600000.0000
Real-space data points n_real_points74
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.858; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.985; Smooth: 0.994

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

8. Citations (1)

9. Files and Curves (10)