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Human Carbonic Anhydrase II in complex with biguanide derivative inhibitor 1-carbamimidamido-N-[(4 sulfamoylphenyl)methyl]methanimidamide, using glycerol as cryoprotectant
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 296 1.5 M sodium citrate, 50 mM Tris-HCl (pH 8.0)
Crystal Properties Matthews coefficient Solvent content 2.32 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.44 α = 90 b = 41.3 β = 104.29 c = 72.03 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 2023-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 0.9718 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 1.05 40.015 95 0.049 0.054 0.9990000000000001 16.7 6.1 107024
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 1.05 1.068 83.7 0.706 0.801 0.715 2.2 4.5
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 1.05 40.015 101727 5295 94.9 0.11711 0.11603 0.1277 0.13856 0.1481 RANDOM 11.483
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] -0.04 0.01 -0.07 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.015 r_dihedral_angle_3_deg 11.68 r_long_range_B_refined 10.711 r_long_range_B_other 10.276 r_scangle_other 7.896 r_dihedral_angle_1_deg 7.152 r_scbond_it 5.843 r_scbond_other 5.841 r_mcangle_other 5.664 r_mcangle_it 5.661
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.015 r_dihedral_angle_3_deg 11.68 r_long_range_B_refined 10.711 r_long_range_B_other 10.276 r_scangle_other 7.896 r_dihedral_angle_1_deg 7.152 r_scbond_it 5.843 r_scbond_other 5.841 r_mcangle_other 5.664 r_mcangle_it 5.661 r_rigid_bond_restr 4.363 r_mcbond_it 3.921 r_mcbond_other 3.9 r_angle_refined_deg 1.901 r_angle_other_deg 0.718 r_chiral_restr 0.107 r_bond_refined_d 0.012 r_gen_planes_refined 0.012 r_bond_other_d 0.004 r_gen_planes_other 0.002 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2005 Nucleic Acid Atoms Solvent Atoms 254 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling XDS data reduction REFMAC phasing