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CDK2-cyclin A in complex with FragLite 9
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6GUC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 Protein at 10 mg/ml. 0.6 to 0.8 M KCl, 0.9 to 1.2 M (NH4)2SO4, and 100 mM HEPES pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.77 55.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.832 α = 90 b = 133.2 β = 90 c = 147.089 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 2020-02-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.89842 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.62 133.2 96.9 0.3 0.323 0.12 0.994 6.2 13.6 43095
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.62 2.72 2.803 3.011 1.098 0.718 0.7 14.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.641 98.928 41560 2076 95.813 0.22 0.2202 0.2202 0.2216 0.2214 63.877
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] -3.272 2.11 1.162
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 21.098 r_dihedral_angle_6_deg 16.544 r_dihedral_angle_3_deg 15.317 r_lrange_it 12.149 r_scangle_it 8.791 r_mcangle_it 6.531 r_dihedral_angle_1_deg 6.118 r_scbond_it 5.845 r_mcbond_it 4.141 r_angle_refined_deg 1.625
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 21.098 r_dihedral_angle_6_deg 16.544 r_dihedral_angle_3_deg 15.317 r_lrange_it 12.149 r_scangle_it 8.791 r_mcangle_it 6.531 r_dihedral_angle_1_deg 6.118 r_scbond_it 5.845 r_mcbond_it 4.141 r_angle_refined_deg 1.625 r_nbtor_refined 0.318 r_symmetry_xyhbond_nbd_refined 0.316 r_symmetry_nbd_refined 0.314 r_nbd_refined 0.228 r_xyhbond_nbd_refined 0.158 r_chiral_restr 0.095 r_bond_refined_d 0.008 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8923 Nucleic Acid Atoms Solvent Atoms 207 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing