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Crystal structure of human carbonic anhydrase II in complex with PCI-27483
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4FIK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 296 1.5 M sodium citrate, 0.1 M Tris pH 8.0
Crystal Properties Matthews coefficient Solvent content 2.12 42.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.509 α = 90 b = 41.737 β = 104.628 c = 72.501 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 2023-06-26 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 1.4 40.218 96.6 0.049 0.059 0.999 17.9 6.4 46842
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 1.4 1.42 94.5 0.319 0.386 0.935 4.2 6.3
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 1.4 40.218 46499 2249 95.51 0.153 0.1508 0.1626 0.1931 0.1983 17.094
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] -1.081 -0.416 0.442 0.754
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.658 r_dihedral_angle_4_deg 24.023 r_dihedral_angle_3_deg 14.805 r_dihedral_angle_1_deg 6.984 r_scangle_it 6.561 r_scangle_other 6.56 r_scbond_it 5.724 r_scbond_other 5.721 r_lrange_it 5.411 r_lrange_other 5.202
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.658 r_dihedral_angle_4_deg 24.023 r_dihedral_angle_3_deg 14.805 r_dihedral_angle_1_deg 6.984 r_scangle_it 6.561 r_scangle_other 6.56 r_scbond_it 5.724 r_scbond_other 5.721 r_lrange_it 5.411 r_lrange_other 5.202 r_rigid_bond_restr 3.916 r_mcangle_other 3.584 r_mcangle_it 3.559 r_mcbond_it 2.804 r_mcbond_other 2.778 r_angle_refined_deg 1.97 r_angle_other_deg 1.499 r_symmetry_nbd_refined 0.231 r_nbd_refined 0.229 r_nbd_other 0.225 r_symmetry_nbd_other 0.203 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.159 r_symmetry_xyhbond_nbd_refined 0.113 r_chiral_restr 0.109 r_metal_ion_refined 0.095 r_symmetry_nbtor_other 0.09 r_symmetry_xyhbond_nbd_other 0.025 r_bond_refined_d 0.016 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2051 Nucleic Acid Atoms Solvent Atoms 244 Heterogen Atoms 47
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing