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Crystal structure of human carbonic anhydrase II in complex with 4-(4-((4-ethoxy-3-(1-methyl-7-oxo-3-propyl-6,7-dihydro-1H-pyrazolo[4,3-d]pyrimidin-5-yl)phenyl)sulfonyl)-1,4-diazepan-1-yl)-3-fluorobenzenesulfonamide
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 2.13 42.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.563 α = 90 b = 41.881 β = 104.382 c = 72.302 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 EIGER X 9M 2024-04-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.87313 ESRF ID30B
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 1.107 70.036 90.8 0.063 0.083 0.988 5.8 1.9 89186
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 1.107 1.126 73.3 0.786 1.052 0.325 0.8 1.9
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 1.107 70.036 89155 4400 90.75 0.146 0.1442 0.1574 0.1742 0.1835 14.788
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] -0.125 -0.183 -1.093 1.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.71 r_dihedral_angle_4_deg 21.393 r_dihedral_angle_3_deg 12.493 r_dihedral_angle_1_deg 7.037 r_scangle_it 4.214 r_scangle_other 4.212 r_lrange_it 4.181 r_lrange_other 4.18 r_scbond_it 4.014 r_scbond_other 4.013
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.71 r_dihedral_angle_4_deg 21.393 r_dihedral_angle_3_deg 12.493 r_dihedral_angle_1_deg 7.037 r_scangle_it 4.214 r_scangle_other 4.212 r_lrange_it 4.181 r_lrange_other 4.18 r_scbond_it 4.014 r_scbond_other 4.013 r_rigid_bond_restr 4.008 r_mcangle_other 2.914 r_mcangle_it 2.912 r_mcbond_it 2.343 r_mcbond_other 2.329 r_angle_refined_deg 1.938 r_angle_other_deg 1.514 r_nbd_refined 0.251 r_symmetry_xyhbond_nbd_refined 0.238 r_nbd_other 0.229 r_symmetry_nbd_refined 0.212 r_symmetry_nbd_other 0.207 r_xyhbond_nbd_refined 0.203 r_nbtor_refined 0.179 r_chiral_restr 0.12 r_symmetry_nbtor_other 0.09 r_metal_ion_refined 0.083 r_bond_refined_d 0.016 r_gen_planes_refined 0.015 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2056 Nucleic Acid Atoms Solvent Atoms 292 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing