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Crystal structure of human carbonic anhydrase II in complex with N-benzyl-2-(2-chloro-N-(4-sulfamoylphenethyl)acetamido)-2-phenylacetamide
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 2.14 42.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.563 α = 90 b = 41.896 β = 104.575 c = 72.516 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 2023-09-19 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 1.35 41.19 99.9 0.04 0.048 0.999 23 6.2 54475
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 1.35 1.37 99.8 0.283 0.355 0.93 4.7 5.2
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 1.35 41.19 54324 2714 99.577 0.145 0.143 0.1535 0.1739 0.1776 14.783
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] -0.464 0.186 -0.931 1.144
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.068 r_dihedral_angle_4_deg 21.204 r_dihedral_angle_3_deg 12.917 r_scangle_it 8.45 r_scangle_other 8.448 r_scbond_it 7.468 r_scbond_other 7.465 r_dihedral_angle_1_deg 6.994 r_lrange_it 6.167 r_lrange_other 6.166
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.068 r_dihedral_angle_4_deg 21.204 r_dihedral_angle_3_deg 12.917 r_scangle_it 8.45 r_scangle_other 8.448 r_scbond_it 7.468 r_scbond_other 7.465 r_dihedral_angle_1_deg 6.994 r_lrange_it 6.167 r_lrange_other 6.166 r_rigid_bond_restr 4.273 r_mcangle_other 2.866 r_mcangle_it 2.859 r_mcbond_it 2.498 r_mcbond_other 2.479 r_angle_refined_deg 2.009 r_angle_other_deg 1.525 r_nbd_refined 0.247 r_symmetry_nbd_refined 0.211 r_symmetry_nbd_other 0.209 r_nbd_other 0.203 r_nbtor_refined 0.179 r_symmetry_xyhbond_nbd_other 0.162 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.13 r_symmetry_xyhbond_nbd_refined 0.128 r_symmetry_nbtor_other 0.09 r_metal_ion_refined 0.049 r_bond_refined_d 0.017 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 2053 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing