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Crystal structure of human carbonic anhydrase II in complex with N-(2-(benzylamino)-2-oxo-1-(4-sulfamoylphenyl)ethyl)-N-(3-chloro-4-methoxyphenyl)-3-(trimethylsilyl)propiolamide
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 2.1 41.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.393 α = 90 b = 41.493 β = 104.414 c = 72.309 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 2024-11-28 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 1.5 41.49 91.2 0.059 0.073 0.998 13.4 5.2 35831
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 1.5 1.53 63.7 0.665 0.863 0.682 1.6 3.5
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 1.5 41.49 35758 1856 91.029 0.162 0.1609 0.1688 0.1846 0.1893 19.478
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] -0.433 0.321 -0.335 0.533
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.249 r_dihedral_angle_4_deg 23.798 r_dihedral_angle_3_deg 14.85 r_dihedral_angle_1_deg 7.1 r_lrange_it 6.047 r_lrange_other 6.046 r_scangle_it 5.18 r_scangle_other 5.178 r_scbond_it 3.298 r_scbond_other 3.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.249 r_dihedral_angle_4_deg 23.798 r_dihedral_angle_3_deg 14.85 r_dihedral_angle_1_deg 7.1 r_lrange_it 6.047 r_lrange_other 6.046 r_scangle_it 5.18 r_scangle_other 5.178 r_scbond_it 3.298 r_scbond_other 3.296 r_mcangle_other 3.064 r_mcangle_it 3.056 r_mcbond_it 2.019 r_mcbond_other 1.998 r_angle_refined_deg 1.904 r_angle_other_deg 1.457 r_nbd_refined 0.226 r_symmetry_nbd_other 0.197 r_nbd_other 0.179 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.172 r_symmetry_nbd_refined 0.171 r_symmetry_xyhbond_nbd_refined 0.16 r_chiral_restr 0.091 r_symmetry_nbtor_other 0.084 r_metal_ion_refined 0.073 r_bond_refined_d 0.012 r_gen_planes_refined 0.012 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 184 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing