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CDK2-cyclin A in complex with FragLite 4
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 2.92 57.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.211 α = 90 b = 133.836 β = 90 c = 148.06 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) 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 2.48 148.06 94.1 0.166 0.998 10.7 13.4 49989
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.48 2.56 100 1.5 0.746 1.7 13.5
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 2.494 99.483 48487 2479 92.892 0.225 0.224 0.2102 0.2457 0.2325 63.32
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] -2.2 2.633 -0.434
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.258 r_dihedral_angle_6_deg 16.375 r_dihedral_angle_3_deg 15.695 r_lrange_it 10.153 r_scangle_it 6.887 r_dihedral_angle_1_deg 6.053 r_mcangle_it 5.151 r_scbond_it 4.35 r_mcbond_it 3.17 r_angle_refined_deg 1.634
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.258 r_dihedral_angle_6_deg 16.375 r_dihedral_angle_3_deg 15.695 r_lrange_it 10.153 r_scangle_it 6.887 r_dihedral_angle_1_deg 6.053 r_mcangle_it 5.151 r_scbond_it 4.35 r_mcbond_it 3.17 r_angle_refined_deg 1.634 r_nbtor_refined 0.32 r_symmetry_nbd_refined 0.314 r_symmetry_xyhbond_nbd_refined 0.313 r_nbd_refined 0.228 r_xyhbond_nbd_refined 0.156 r_chiral_restr 0.101 r_bond_refined_d 0.009 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8877 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing