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CDK1/Cks2 in complex with AZD5438
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4YC6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 CONDITIONS AROUND 0.1M TRIS/BICINE (PH8.5), 10% PEG8K, 20% ETHYLENE GLYCOL PROTEIN AT 10-12 MG/ML, 0.5mM INHIBITOR
Crystal Properties Matthews coefficient Solvent content 2.47 50.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.995 α = 90 b = 149.202 β = 92.23 c = 87.26 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 2017-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92819 Diamond I04-1
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 2.75 87.35 99.8 0.09 8.8 3.8 45022
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 2.75 87.35 99.5 0.8 1.4 3.8
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 4YC6 2.75 87.35 42835 2187 99.68 0.2292 0.22691 0.2309 0.2737 0.2761 RANDOM 73.119
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] 2.38 -0.28 -3.06 0.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.155 r_dihedral_angle_4_deg 20.086 r_dihedral_angle_3_deg 19.603 r_long_range_B_refined 11.675 r_long_range_B_other 11.675 r_scangle_other 8.029 r_mcangle_other 8.019 r_mcangle_it 8.018 r_dihedral_angle_1_deg 6.267 r_mcbond_it 5.129
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.155 r_dihedral_angle_4_deg 20.086 r_dihedral_angle_3_deg 19.603 r_long_range_B_refined 11.675 r_long_range_B_other 11.675 r_scangle_other 8.029 r_mcangle_other 8.019 r_mcangle_it 8.018 r_dihedral_angle_1_deg 6.267 r_mcbond_it 5.129 r_mcbond_other 5.125 r_scbond_it 4.995 r_scbond_other 4.994 r_angle_other_deg 3.653 r_angle_refined_deg 1.54 r_chiral_restr 0.087 r_bond_refined_d 0.011 r_gen_planes_other 0.007 r_gen_planes_refined 0.006 r_bond_other_d 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 11742 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing