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Crystal structure of carbonic anhydrase II with 3-(benzylsulfonyl)phenyl sulfamate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HT0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1M sodium BICINE, pH 9, 0.2 M ammonium sulfate and 2M sodium malonate pH 7 made from 1M sodium BICINE and 3.4M sodium malonate
Crystal Properties Matthews coefficient Solvent content 2.07 40.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.132 α = 90 b = 41.08 β = 104.42 c = 72.277 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 16M 2024-10-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.9762 PETRA III, EMBL c/o DESY P13 (MX1)
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 1.12 70 97.4 0.109 0.119 0.046 0.99 12.8 6.6 89732
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 1.12 1.14 66.1 0.324 0.367 0.167 0.913 4.1
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.12 39.86 80798 8916 97.32 0.15722 0.15453 0.1609 0.18181 0.1837 RANDOM 16.529
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] -0.18 0.06 -0.11 0.23
RMS Deviations Key Refinement Restraint Deviation r_mcangle_it 24.521 r_long_range_B_refined 21.81 r_mcbond_it 21.036 r_scbond_it 16.876 r_dihedral_angle_3_deg 12.426 r_rigid_bond_restr 7.859 r_dihedral_angle_2_deg 7.165 r_dihedral_angle_1_deg 6.97 r_angle_refined_deg 2.164 r_chiral_restr 0.147
RMS Deviations Key Refinement Restraint Deviation r_mcangle_it 24.521 r_long_range_B_refined 21.81 r_mcbond_it 21.036 r_scbond_it 16.876 r_dihedral_angle_3_deg 12.426 r_rigid_bond_restr 7.859 r_dihedral_angle_2_deg 7.165 r_dihedral_angle_1_deg 6.97 r_angle_refined_deg 2.164 r_chiral_restr 0.147 r_bond_refined_d 0.014 r_gen_planes_refined 0.013 r_bond_other_d r_angle_other_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2045 Nucleic Acid Atoms Solvent Atoms 253 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing PDB_EXTRACT data extraction XDS data reduction