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CDK2-cyclin A in complex with FragLite 14
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 2.87 57.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.093 α = 90 b = 133.704 β = 90 c = 147.709 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 2020-05-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.91839 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 2.42 147.71 92.2 0.056 0.06 0.016 1 28.7 13.4 52416
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 2.42 2.49 100 0.38 0.409 0.109 0.971 6.9 14
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 2.42 66.316 52347 2659 92.206 0.212 0.2122 0.2108 0.2134 0.2119 32.975
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] -1.519 0.26 1.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 16.563 r_dihedral_angle_6_deg 16.501 r_dihedral_angle_3_deg 14.703 r_lrange_it 8.547 r_dihedral_angle_1_deg 6.226 r_scangle_it 6.224 r_mcangle_it 4.342 r_scbond_it 4.155 r_mcbond_it 2.81 r_angle_refined_deg 1.643
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 16.563 r_dihedral_angle_6_deg 16.501 r_dihedral_angle_3_deg 14.703 r_lrange_it 8.547 r_dihedral_angle_1_deg 6.226 r_scangle_it 6.224 r_mcangle_it 4.342 r_scbond_it 4.155 r_mcbond_it 2.81 r_angle_refined_deg 1.643 r_nbtor_refined 0.315 r_symmetry_xyhbond_nbd_refined 0.278 r_symmetry_nbd_refined 0.237 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.101 r_bond_refined_d 0.008 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8979 Nucleic Acid Atoms Solvent Atoms 431 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing