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Crystal structure of human carbonic anhydrase isozyme XII with 4-chloro-2-(cyclohexylamino)-N-(2-hydroxyethyl)-5-sulfamoyl-benzamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JD0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.2 291 Crystallization buffer: 0.1M ammonium citrate (pH 7.2), 0.2 M ammonium sulfate and 30% PEG4000
Crystal Properties Matthews coefficient Solvent content 2.08 40.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.127 α = 90 b = 74.235 β = 108.64 c = 91.527 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2014-01-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.975522 PETRA III, EMBL c/o DESY P14 (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) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.21 73.083 95.9 0.043 0.053 0.02 20.2 7 284311 284311
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) Redundancy Number Unique Reflections (All) 1.21 1.28 92.9 0.421 0.421 0.5 0.191 1.7 6.6 40120
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1JD0 1.21 73.08 284275 28370 95.67 0.1396 0.1359 0.1358 0.1734 0.1737 RANDOM 20.0494
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] -0.29 0.08 0.36 -0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.228 r_sphericity_free 22.794 r_dihedral_angle_4_deg 17.376 r_sphericity_bonded 15.163 r_dihedral_angle_3_deg 12.059 r_rigid_bond_restr 8.235 r_dihedral_angle_1_deg 6.961 r_scbond_it 5.123 r_mcangle_it 3.699 r_mcbond_it 3.123
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.228 r_sphericity_free 22.794 r_dihedral_angle_4_deg 17.376 r_sphericity_bonded 15.163 r_dihedral_angle_3_deg 12.059 r_rigid_bond_restr 8.235 r_dihedral_angle_1_deg 6.961 r_scbond_it 5.123 r_mcangle_it 3.699 r_mcbond_it 3.123 r_angle_refined_deg 2.514 r_chiral_restr 0.185 r_bond_refined_d 0.029 r_gen_planes_refined 0.018
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8327 Nucleic Acid Atoms Solvent Atoms 1036 Heterogen Atoms 162
Software Software Software Name Purpose REFMAC refinement XDS data reduction PDB_EXTRACT data extraction Coot model building SCALA data scaling MOLREP phasing