6G6T

Crystal structure of human carbonic anhydrase isozyme II with N-butyl-2,4-dichloro-5-sulfamoyl-benzamide


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4HT0 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7291Crystallization buffer: 0.1M sodium bicine (pH 9), 0.2M ammonium sulfate and 2M sodium malonate (pH 7)
Crystal Properties
Matthews coefficientSolvent content
2.0740.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.057α = 90
b = 41.196β = 104.19
c = 72.094γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2013-05-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)0.975522PETRA III, EMBL c/o DESYP14 (MX2)

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Rrim I (All)Rpim I (All)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
11.1241.19694.30.0520.0660.02528.46.486201
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Rrim I (All)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.1231.1873.40.0640.0640.0890.038115

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 REPLACEMENTTHROUGHOUT4HT01.1239.7186179870694.30.14670.14330.1774RANDOM16.1384
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]
0.50.07-0.53
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35
r_sphericity_free22.362
r_dihedral_angle_4_deg19.48
r_sphericity_bonded14.823
r_dihedral_angle_3_deg13.91
r_rigid_bond_restr10.839
r_dihedral_angle_1_deg6.107
r_scbond_it3.742
r_angle_refined_deg2.837
r_mcangle_it2.502
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35
r_sphericity_free22.362
r_dihedral_angle_4_deg19.48
r_sphericity_bonded14.823
r_dihedral_angle_3_deg13.91
r_rigid_bond_restr10.839
r_dihedral_angle_1_deg6.107
r_scbond_it3.742
r_angle_refined_deg2.837
r_mcangle_it2.502
r_mcbond_it2.343
r_chiral_restr0.185
r_bond_refined_d0.03
r_gen_planes_refined0.018
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2034
Nucleic Acid Atoms
Solvent Atoms328
Heterogen Atoms35

Software

Software
Software NamePurpose
REFMACrefinement
SCALAdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
MOLREPphasing
Cootmodel building