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Human Carbonic Anhydrase I in complex with veralipride
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 9 296 28-31% PEG4000, 0.2 M sodium acetate, 0.1 M Tris pH 9.0
Crystal Properties Matthews coefficient Solvent content 2.36 47.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.14 α = 90 b = 71.25 β = 90 c = 121.16 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 2021-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 0.97170 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 1.55 46.19 99.9 0.08 0.084 0.999 16.03 12.4 80418
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 1.55 1.59 100 1.386 1.338 0.851 2.21 12.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NONE 1.55 46.19 80418 4095 99.938 0.171 0.1686 0.1859 0.2182 0.236 29.202
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] -3.748 7.125 -3.378
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.236 r_dihedral_angle_4_deg 16.886 r_dihedral_angle_3_deg 14.057 r_rigid_bond_restr 13.557 r_dihedral_angle_1_deg 7.876 r_scangle_it 6.981 r_scangle_other 6.98 r_lrange_it 6.687 r_lrange_other 6.686 r_scbond_other 6.167
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.236 r_dihedral_angle_4_deg 16.886 r_dihedral_angle_3_deg 14.057 r_rigid_bond_restr 13.557 r_dihedral_angle_1_deg 7.876 r_scangle_it 6.981 r_scangle_other 6.98 r_lrange_it 6.687 r_lrange_other 6.686 r_scbond_other 6.167 r_scbond_it 6.166 r_mcangle_it 5.834 r_mcangle_other 5.825 r_mcbond_other 5.238 r_mcbond_it 5.237 r_angle_refined_deg 1.817 r_angle_other_deg 1.481 r_nbd_other 0.238 r_symmetry_xyhbond_nbd_refined 0.219 r_nbd_refined 0.213 r_symmetry_nbd_other 0.202 r_symmetry_nbd_refined 0.173 r_nbtor_refined 0.169 r_xyhbond_nbd_refined 0.146 r_metal_ion_refined 0.119 r_chiral_restr 0.1 r_symmetry_nbtor_other 0.079 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.007 r_gen_planes_other 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4016 Nucleic Acid Atoms Solvent Atoms 296 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing