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Identification of a New Zinc Binding Chemotype by Fragment Screening
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CQ0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 281 concentrated CA II at 10 mg/mL was set up with microseeding over 2.9 M ammonium sulfate with 0.1 M Tris buffer at pH 8.3 at 8 C in 250 nL plus 225 nL plus 25 nL (seeds) ratio.
Crystal Properties Matthews coefficient Solvent content 2.11 41.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.454 α = 90 b = 41.654 β = 104.29 c = 72.045 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 ADSC QUANTUM 210 2017-02-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.953700 Australian Synchrotron MX1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.39 41.6 97.5 0.071 0.028 0.999 18.1 7.4 47924
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.39 1.42 93.7 0.757 0.3 0.776 2.6 7.1
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4cq0 1.39 41.6 45561 2352 97.5 0.11501 0.1129 0.15646 0.1581 RANDOM 15.279
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] 0.05 0.07 0.08 -0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.112 r_sphericity_free 31.644 r_dihedral_angle_4_deg 21.619 r_dihedral_angle_3_deg 12.358 r_sphericity_bonded 9.975 r_dihedral_angle_1_deg 6.477 r_long_range_B_refined 3.429 r_long_range_B_other 3.429 r_scangle_other 2.886 r_mcangle_other 2.779
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.112 r_sphericity_free 31.644 r_dihedral_angle_4_deg 21.619 r_dihedral_angle_3_deg 12.358 r_sphericity_bonded 9.975 r_dihedral_angle_1_deg 6.477 r_long_range_B_refined 3.429 r_long_range_B_other 3.429 r_scangle_other 2.886 r_mcangle_other 2.779 r_mcangle_it 2.767 r_rigid_bond_restr 2.67 r_scbond_it 2.495 r_scbond_other 2.494 r_mcbond_it 2.193 r_mcbond_other 2.184 r_angle_refined_deg 1.906 r_angle_other_deg 1.043 r_chiral_restr 0.295 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_bond_other_d 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2054 Nucleic Acid Atoms Solvent Atoms 288 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing