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Crystal structure of human carbonic anhydrase II in complex with 2-chloro-N-(3-chloro-4-methoxyphenyl)-N-(2-oxo-2-((4-sulfamoylphenethyl)amino)-1-(thiophen-2-yl)ethyl)acetamide
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 42.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.49 α = 90 b = 41.627 β = 104.396 c = 72.989 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) Rpim 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 1.324 35.871 95.7 0.109 0.12 0.049 0.997 8.7 5.6 55219
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.324 1.347 71.6 1.365 1.579 0.78 0.343 0.9 4
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 1.324 35.871 55201 2800 95.603 0.134 0.1317 0.1514 0.1744 0.1862 13.723
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] 0.002 -1.976 1.803 -0.699
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.712 r_dihedral_angle_4_deg 23.379 r_dihedral_angle_3_deg 14.088 r_rigid_bond_restr 8.938 r_dihedral_angle_1_deg 7.131 r_lrange_other 5.148 r_lrange_it 5.146 r_scangle_it 4.47 r_scangle_other 4.469 r_scbond_other 3.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.712 r_dihedral_angle_4_deg 23.379 r_dihedral_angle_3_deg 14.088 r_rigid_bond_restr 8.938 r_dihedral_angle_1_deg 7.131 r_lrange_other 5.148 r_lrange_it 5.146 r_scangle_it 4.47 r_scangle_other 4.469 r_scbond_other 3.895 r_scbond_it 3.894 r_mcangle_other 2.699 r_mcangle_it 2.687 r_mcbond_it 2.003 r_mcbond_other 1.986 r_angle_refined_deg 1.971 r_angle_other_deg 1.486 r_nbd_other 0.302 r_symmetry_nbd_refined 0.266 r_nbd_refined 0.249 r_symmetry_nbd_other 0.197 r_xyhbond_nbd_refined 0.187 r_nbtor_refined 0.171 r_symmetry_xyhbond_nbd_refined 0.145 r_chiral_restr 0.104 r_symmetry_nbtor_other 0.088 r_metal_ion_refined 0.05 r_bond_refined_d 0.015 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 2049 Nucleic Acid Atoms Solvent Atoms 281 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing