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Structure of phopsho-CDK2-cyclin A in complex with an ATP-competitive inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other CDK2?cyclin A structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 ammonium sulphate; potassium chloride; sodium Hepes pH7.5
Crystal Properties Matthews coefficient Solvent content 2.94 58.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.466 α = 90 b = 134.395 β = 90 c = 149.481 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 CCD ADSC QUANTUM 210 2014-05-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.4 99.95 98.7 13.2 4.3 253641
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 CDK2?cyclin A structure 2.4 99.94 55453 2862 98.14 0.21333 0.21156 0.24863 0.2199 RANDOM 40.22
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] -1.14 1.02 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.29 r_dihedral_angle_4_deg 15.673 r_dihedral_angle_3_deg 14.841 r_dihedral_angle_1_deg 5.274 r_long_range_B_refined 5.021 r_mcangle_it 2.299 r_angle_refined_deg 1.358 r_mcbond_it 1.286 r_scbond_it 1.26 r_chiral_restr 0.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.29 r_dihedral_angle_4_deg 15.673 r_dihedral_angle_3_deg 14.841 r_dihedral_angle_1_deg 5.274 r_long_range_B_refined 5.021 r_mcangle_it 2.299 r_angle_refined_deg 1.358 r_mcbond_it 1.286 r_scbond_it 1.26 r_chiral_restr 0.083 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8684 Nucleic Acid Atoms Solvent Atoms 230 Heterogen Atoms 79
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing