5THI

Crystal Structure of 2-hydroxycyclohepta-2,4,6-trien-1-one bound to human carbonic anhydrase 2 L198G


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3KS3 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION8291Ammonium Sulfate, Tris, pH 8.0, VAPOR DIFFUSION, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.141.46

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.186α = 90
b = 41.368β = 104.2
c = 71.727γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDBRUKER SMART 60002015-07-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEENRAF-NONIUS FR5911.5478

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.569.5499.50.053812.875.0938528
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.51.5290.90.43792.71376

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3KS31.54036588188599.450.170030.168640.19593RANDOM13.693
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.17-0.02-0.260.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.717
r_dihedral_angle_4_deg23.579
r_dihedral_angle_3_deg13.468
r_dihedral_angle_1_deg7.223
r_long_range_B_refined5.153
r_long_range_B_other5.152
r_scangle_other3.892
r_scbond_it2.575
r_scbond_other2.574
r_mcangle_other2.316
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.717
r_dihedral_angle_4_deg23.579
r_dihedral_angle_3_deg13.468
r_dihedral_angle_1_deg7.223
r_long_range_B_refined5.153
r_long_range_B_other5.152
r_scangle_other3.892
r_scbond_it2.575
r_scbond_other2.574
r_mcangle_other2.316
r_mcangle_it2.312
r_angle_refined_deg2.147
r_angle_other_deg1.554
r_mcbond_it1.551
r_mcbond_other1.532
r_chiral_restr0.133
r_bond_refined_d0.022
r_gen_planes_refined0.013
r_bond_other_d0.004
r_gen_planes_other0.002
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2045
Nucleic Acid Atoms
Solvent Atoms207
Heterogen Atoms45

Software

Software
Software NamePurpose
REFMACrefinement
APEXdata collection
PHASERphasing