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CDK1/CyclinB/Cks2 in complex with CGP74514A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4Y72
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.1M MES/IMIDAZOLE BUFFER (PH6.7), 6.5% MPD, 5% PEG4K, 10% PEG1K PROTEIN AT 10-12 MG/ML + 0.5mM Inhibitor
Crystal Properties Matthews coefficient Solvent content 2.4 48.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.513 α = 90 b = 68.205 β = 90 c = 166.086 γ = 90
Symmetry Space Group P 21 21 21
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 2016-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.987 Diamond I03
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 2.73 83.18 100 0.27 5.2 6.7 20165
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.73 2.86 100 1.3 5.5
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 4Y72 2.73 83.18 19176 989 99.93 0.19947 0.19665 0.25272 0.254 RANDOM 51.626
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] -1.44 -2.04 3.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.661 r_dihedral_angle_4_deg 20.414 r_dihedral_angle_3_deg 17.674 r_long_range_B_refined 8.098 r_long_range_B_other 8.097 r_dihedral_angle_1_deg 6.89 r_scangle_other 5.425 r_mcangle_it 5.033 r_mcangle_other 5.033 r_angle_other_deg 3.637
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.661 r_dihedral_angle_4_deg 20.414 r_dihedral_angle_3_deg 17.674 r_long_range_B_refined 8.098 r_long_range_B_other 8.097 r_dihedral_angle_1_deg 6.89 r_scangle_other 5.425 r_mcangle_it 5.033 r_mcangle_other 5.033 r_angle_other_deg 3.637 r_scbond_it 3.254 r_scbond_other 3.254 r_mcbond_it 3.09 r_mcbond_other 3.083 r_angle_refined_deg 1.522 r_chiral_restr 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_gen_planes_other 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 5139 Nucleic Acid Atoms Solvent Atoms 76 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing