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Structure of CDK2/cyclin A M246Q, S247EN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JST
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293.15 200 mM K/Na Tartrate, 20 % PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.3 46.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.309 α = 90 b = 137.853 β = 99.81 c = 109.774 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 2016-12-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.43 85.1 99.6 0.997 12 1.9 44281
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.43 2.52 98.7 0.528 1.3 1.9
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 1JST 2.43 85.1 42143 2129 99.44 0.20326 0.20092 0.25075 0.2126 RANDOM 43.606
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] 1.78 0.54 -0.47 -1.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.862 r_dihedral_angle_3_deg 15.144 r_dihedral_angle_4_deg 13.873 r_dihedral_angle_1_deg 6.55 r_long_range_B_refined 2.215 r_long_range_B_other 2.206 r_angle_refined_deg 1.381 r_angle_other_deg 1.112 r_mcangle_it 1.033 r_mcangle_other 1.033
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.862 r_dihedral_angle_3_deg 15.144 r_dihedral_angle_4_deg 13.873 r_dihedral_angle_1_deg 6.55 r_long_range_B_refined 2.215 r_long_range_B_other 2.206 r_angle_refined_deg 1.381 r_angle_other_deg 1.112 r_mcangle_it 1.033 r_mcangle_other 1.033 r_scangle_other 0.816 r_mcbond_it 0.572 r_mcbond_other 0.572 r_scbond_it 0.453 r_scbond_other 0.453 r_chiral_restr 0.058 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 8383 Nucleic Acid Atoms Solvent Atoms 97 Heterogen Atoms
Software Software Software Name Purpose DIALS data reduction xia2 data reduction pointless data scaling Aimless data scaling PHASER phasing REFMAC refinement Coot model building