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human carbonic anhydrase I in complex with Sonepiprazole
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JV0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 28% PEG4000, 0.2 M sodium acetate, 0.1 M Tris pH 9.0
Crystal Properties Matthews coefficient Solvent content 2.35 47.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.625 α = 90 b = 71.232 β = 90 c = 121.87 γ = 90
Symmetry Space Group P 21 21 21
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 2022-07-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 1.0 ELETTRA 11.2C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.35 61.5 100 0.12 0.132 0.998 13.5 10.5 23430
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.35 2.43 100 0.655 0.715 0.943 3.3 10.6
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NONE 2.35 61.5 23296 1108 99.602 0.199 0.1955 0.2018 0.2624 0.2613 34.359
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] 0.006 0.171 -0.177
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.665 r_dihedral_angle_4_deg 20.377 r_dihedral_angle_3_deg 15.282 r_dihedral_angle_1_deg 7.963 r_lrange_it 7.899 r_lrange_other 7.896 r_scangle_it 4.993 r_scangle_other 4.993 r_mcangle_other 3.808 r_mcangle_it 3.807
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.665 r_dihedral_angle_4_deg 20.377 r_dihedral_angle_3_deg 15.282 r_dihedral_angle_1_deg 7.963 r_lrange_it 7.899 r_lrange_other 7.896 r_scangle_it 4.993 r_scangle_other 4.993 r_mcangle_other 3.808 r_mcangle_it 3.807 r_scbond_it 3.122 r_scbond_other 3.121 r_mcbond_it 2.555 r_mcbond_other 2.555 r_angle_refined_deg 1.52 r_angle_other_deg 1.254 r_nbd_other 0.222 r_symmetry_xyhbond_nbd_refined 0.207 r_nbd_refined 0.189 r_symmetry_nbd_other 0.185 r_symmetry_nbd_refined 0.166 r_nbtor_refined 0.164 r_xyhbond_nbd_refined 0.141 r_metal_ion_refined 0.108 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4016 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing