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Crystal structure of alfa carbonic anhydrase from Schistosoma mansoni with 4-(2-(3-(4-iodophenyl)ureido)ethyl)benzenesulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6QQM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 296 20% PEG 6000, 0.1 M citrate pH 5.0
Crystal Properties Matthews coefficient Solvent content 2.89 57.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.5 α = 90 b = 103.5 β = 90 c = 133.29 γ = 120
Symmetry Space Group P 32 2 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 PILATUS3 6M 2020-10-08 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 1.75 89.64 99.4 0.089 0.092 0.999 18.17 16 83597
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 1.75 1.79 94.3 0.523 0.557 0.907 2.48
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NONE 6qqm 2 89.634 56292 2818 99.963 0.166 0.1643 0.1944 0.2192 28.416
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] 0.295 0.148 0.295 -0.958
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.649 r_dihedral_angle_4_deg 18.973 r_dihedral_angle_3_deg 13.833 r_lrange_it 7.889 r_lrange_other 7.859 r_scangle_other 7.844 r_scangle_it 7.839 r_dihedral_angle_1_deg 7.692 r_scbond_it 5.315 r_scbond_other 5.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.649 r_dihedral_angle_4_deg 18.973 r_dihedral_angle_3_deg 13.833 r_lrange_it 7.889 r_lrange_other 7.859 r_scangle_other 7.844 r_scangle_it 7.839 r_dihedral_angle_1_deg 7.692 r_scbond_it 5.315 r_scbond_other 5.314 r_mcangle_it 3.769 r_mcangle_other 3.724 r_mcbond_it 2.929 r_mcbond_other 2.928 r_angle_refined_deg 1.865 r_angle_other_deg 1.44 r_symmetry_nbd_refined 0.34 r_nbd_other 0.245 r_nbd_refined 0.203 r_symmetry_nbd_other 0.191 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.146 r_metal_ion_refined 0.139 r_symmetry_xyhbond_nbd_refined 0.131 r_chiral_restr 0.099 r_symmetry_nbtor_other 0.093 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4473 Nucleic Acid Atoms Solvent Atoms 312 Heterogen Atoms 152
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing