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Crystal structure of carbonic anhydrase II with methyl 4-chloro-3-sulfamoyl-benzoate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HT0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1M sodium bicine (pH 9) and 2M sodium malonate (pH 7)
Crystal Properties Matthews coefficient Solvent content 2 38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.126 α = 90 b = 40.928 β = 103.99 c = 71.71 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 2018-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.979700 PETRA III, EMBL c/o DESY P13 (MX1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.18 69.58 96.7 0.041 0.05 0.019 0.999 16.9 6.8 75321
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.18 1.24 94 0.384 0.456 0.173 0.939 6.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.18 69.58 67660 7625 96.37 0.14705 0.1439 0.1492 0.17516 0.1764 RANDOM 22.688
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] -0.35 0.9 -0.64 0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.291 r_rigid_bond_restr 31.44 r_sphericity_free 27.684 r_sphericity_bonded 22.116 r_dihedral_angle_4_deg 21.218 r_dihedral_angle_3_deg 12.332 r_scbond_it 8.672 r_dihedral_angle_1_deg 7.186 r_mcangle_it 6.496 r_long_range_B_refined 6.464
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.291 r_rigid_bond_restr 31.44 r_sphericity_free 27.684 r_sphericity_bonded 22.116 r_dihedral_angle_4_deg 21.218 r_dihedral_angle_3_deg 12.332 r_scbond_it 8.672 r_dihedral_angle_1_deg 7.186 r_mcangle_it 6.496 r_long_range_B_refined 6.464 r_mcbond_it 5.757 r_angle_refined_deg 2.131 r_chiral_restr 0.403 r_bond_refined_d 0.016 r_gen_planes_refined 0.014 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2038 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement SCALA data scaling XDS data reduction Coot model building MOLREP phasing