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Crystal structure of human carbonic anhydrase isozyme II with 2-chloro-5-{[(4,6-dimethyl-2-pyrimidinyl)sulfanyl]acetyl}benzenesulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HLJ PDB entry 3HLJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 298 2.4M Na-Malonate, pH 7, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.1 39.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.012 α = 90 b = 41.058 β = 104.15 c = 71.839 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 CCD MARMosaic, 225 mm Detector swing-out angle up to 30 degrees 2010-11-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 0.9748 EMBL/DESY, HAMBURG X12
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.3 69.673 100 0.129 0.129 14 7 58642 10.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.3 1.37 100 0.368 0.368 1.6 5.8 8514
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MR THROUGHOUT PDB entry 3HLJ 1.3 69.67 58625 58625 5908 100 0.148 0.148 0.143 0.14 0.192 0.1893 RANDOM 14.204
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] 0.58 -0.6 0.34 -1.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.353 r_dihedral_angle_4_deg 21.041 r_sphericity_free 16.406 r_dihedral_angle_3_deg 13.316 r_sphericity_bonded 10.158 r_dihedral_angle_1_deg 6.99 r_scangle_it 6.921 r_scbond_it 5.479 r_mcangle_it 4.035 r_rigid_bond_restr 3.716
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.353 r_dihedral_angle_4_deg 21.041 r_sphericity_free 16.406 r_dihedral_angle_3_deg 13.316 r_sphericity_bonded 10.158 r_dihedral_angle_1_deg 6.99 r_scangle_it 6.921 r_scbond_it 5.479 r_mcangle_it 4.035 r_rigid_bond_restr 3.716 r_mcbond_it 3.185 r_angle_refined_deg 2.641 r_nbtor_refined 0.321 r_nbd_refined 0.24 r_symmetry_vdw_refined 0.233 r_symmetry_hbond_refined 0.232 r_chiral_restr 0.203 r_xyhbond_nbd_refined 0.186 r_metal_ion_refined 0.061 r_bond_refined_d 0.034 r_gen_planes_refined 0.018
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2059 Nucleic Acid Atoms Solvent Atoms 304 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PDB_EXTRACT data extraction MAR345dtb data collection