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Human Carbonic Anhydrase II in complex with B-Thujaplicin (2-hydroxy-4-(propan-2-yl)cyclohepta-2,4,6-trien-1-one)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HS4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 296 1.5 M sodium citrate, 20 mM Tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.06 40.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.227 α = 90 b = 41.046 β = 104.26 c = 71.916 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 9M 2024-04-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.8731 ESRF ID30B
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 1.44 41.05 99.9 0.094 0.102 0.999 11.8 6.7 43458
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 1.44 1.46 1.25 1.355 0.522 1.5
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1.44 39.87 41313 2130 99.9 0.16701 0.16556 0.1657 0.19578 0.196 RANDOM 18.716
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] -0.51 -0.18 0.19 0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.772 r_dihedral_angle_1_deg 7.062 r_long_range_B_refined 5.519 r_long_range_B_other 5.449 r_dihedral_angle_2_deg 4.642 r_scangle_other 4.587 r_scbond_it 3.035 r_scbond_other 3.034 r_mcangle_other 2.628 r_mcangle_it 2.622
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.772 r_dihedral_angle_1_deg 7.062 r_long_range_B_refined 5.519 r_long_range_B_other 5.449 r_dihedral_angle_2_deg 4.642 r_scangle_other 4.587 r_scbond_it 3.035 r_scbond_other 3.034 r_mcangle_other 2.628 r_mcangle_it 2.622 r_angle_refined_deg 1.9 r_mcbond_it 1.795 r_mcbond_other 1.77 r_angle_other_deg 0.646 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2059 Nucleic Acid Atoms Solvent Atoms 211 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling XDS data reduction REFMAC phasing