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Crystal structure of human carbonic anhydrase II in complex with 4-ethoxy-3-(1-methyl-7-oxo-3-propyl-6,7-dihydro-1H-pyrazolo[4,3-d]pyrimidin-5-yl)benzenesulfonamide
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 2.22 44.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.261 α = 90 b = 42.329 β = 104.503 c = 73.328 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 4M 2024-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-3 0.96770 ESRF MASSIF-3
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 1.514 36.357 97.9 0.145 0.164 0.992 7.4 4.7 39398
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 1.514 1.54 99.5 2.086 2.358 0.329 0.8 4.7
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 1.514 36.357 39181 1913 97.342 0.19 0.188 0.1878 0.2221 0.2219 14.739
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] 0.134 0.139 0.095 -0.265
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.555 r_dihedral_angle_4_deg 21.202 r_dihedral_angle_3_deg 13.752 r_dihedral_angle_1_deg 7.252 r_lrange_it 5.97 r_lrange_other 5.97 r_scangle_it 4.255 r_scangle_other 4.253 r_scbond_it 2.604 r_scbond_other 2.603
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.555 r_dihedral_angle_4_deg 21.202 r_dihedral_angle_3_deg 13.752 r_dihedral_angle_1_deg 7.252 r_lrange_it 5.97 r_lrange_other 5.97 r_scangle_it 4.255 r_scangle_other 4.253 r_scbond_it 2.604 r_scbond_other 2.603 r_mcangle_other 2.389 r_mcangle_it 2.388 r_angle_refined_deg 1.723 r_mcbond_it 1.494 r_mcbond_other 1.492 r_angle_other_deg 1.325 r_nbd_refined 0.23 r_symmetry_nbd_other 0.192 r_symmetry_nbd_refined 0.186 r_symmetry_xyhbond_nbd_refined 0.177 r_nbd_other 0.176 r_nbtor_refined 0.163 r_xyhbond_nbd_refined 0.144 r_symmetry_xyhbond_nbd_other 0.092 r_chiral_restr 0.084 r_metal_ion_refined 0.083 r_symmetry_nbtor_other 0.076 r_bond_refined_d 0.011 r_gen_planes_refined 0.011 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 248 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing