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Crystal structure of human carbonic anhydrase isozyme II with 2,3,5,6-Tetrafluoro-4-(propylthio)benzenesulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HLJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 Crystallization buffer was 0.1M sodium BICINE, pH 9, 0.25 M ammonium sulfate and 2M sodium malonate pH 7 made from 1M sodium BICINE and 3.4M sodium malonate
Crystal Properties Matthews coefficient Solvent content 2 38.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.214 α = 90 b = 41.026 β = 104.29 c = 71.774 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 PILATUS 6M 2013-05-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.826606 PETRA III, EMBL c/o DESY P13 (MX1)
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 1.06 69.554 95.4 0.041 0.05 0.019 17.9 6.6 102717 102717 8.784
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 1.06 1.12 83 0.35 0.35 0.43 0.17 2.2 5.8 12952
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 3HLJ 1.06 40.91 102697 10363 95.17 0.131 0.128 0.1258 0.151 0.1486 RANDOM 15.737
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] 0.02 -0.1 -0.27 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.618 r_sphericity_free 20.884 r_dihedral_angle_4_deg 20.597 r_dihedral_angle_3_deg 11.976 r_sphericity_bonded 9.795 r_rigid_bond_restr 8.835 r_dihedral_angle_1_deg 7.167 r_angle_refined_deg 2.417 r_chiral_restr 0.162 r_bond_refined_d 0.024
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.618 r_sphericity_free 20.884 r_dihedral_angle_4_deg 20.597 r_dihedral_angle_3_deg 11.976 r_sphericity_bonded 9.795 r_rigid_bond_restr 8.835 r_dihedral_angle_1_deg 7.167 r_angle_refined_deg 2.417 r_chiral_restr 0.162 r_bond_refined_d 0.024 r_gen_planes_refined 0.015
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2049 Nucleic Acid Atoms Solvent Atoms 268 Heterogen Atoms 67
Software Software Software Name Purpose XDS data reduction PDB_EXTRACT data extraction SCALA data scaling Coot model building MOLREP phasing REFMAC refinement