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Crystal Structure of 2-hydroxycyclohepta-2,4,6-trien-1-one bound to human carbonic anhydrase 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KS3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 291 Ammonium Sulfate, Tris, pH 8.0, VAPOR DIFFUSION, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.08 40.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.283 α = 90 b = 41.34 β = 104 c = 71.848 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 CCD BRUKER SMART 6000 2015-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591 1.5478
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.5 69.71 99.6 0.0437 22.21 6.14 38843
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.52 92.5 0.218 3.03 1515
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 (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 3KS3 1.5 40 36902 1900 99.53 0.15557 0.15382 0.1545 0.18867 0.1897 RANDOM 11.493
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] 0.15 0.07 -0.11 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.052 r_dihedral_angle_4_deg 21.915 r_dihedral_angle_3_deg 12.444 r_dihedral_angle_1_deg 7.205 r_long_range_B_other 4.877 r_long_range_B_refined 4.876 r_scangle_other 3.274 r_scbond_other 2.29 r_scbond_it 2.286 r_angle_refined_deg 2.185
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.052 r_dihedral_angle_4_deg 21.915 r_dihedral_angle_3_deg 12.444 r_dihedral_angle_1_deg 7.205 r_long_range_B_other 4.877 r_long_range_B_refined 4.876 r_scangle_other 3.274 r_scbond_other 2.29 r_scbond_it 2.286 r_angle_refined_deg 2.185 r_mcangle_other 1.885 r_mcangle_it 1.881 r_angle_other_deg 1.255 r_mcbond_it 1.211 r_mcbond_other 1.186 r_chiral_restr 0.138 r_bond_refined_d 0.022 r_gen_planes_refined 0.013 r_bond_other_d 0.003 r_gen_planes_other 0.002 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 2049 Nucleic Acid Atoms Solvent Atoms 216 Heterogen Atoms 63
Software Software Software Name Purpose REFMAC refinement APEX data collection PHASER phasing