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The Crystal Structure of CDK3 and CyclinE1 Complex from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EOJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1.6M MgSO4, 0.1M MES pH6.5
Crystal Properties Matthews coefficient Solvent content 2.69 54.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 154.154 α = 90 b = 154.154 β = 90 c = 76.675 γ = 120
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 PILATUS3 6M 2022-03-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08B1-1 1.18078 CLSI 08B1-1
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 2.25 44.5 100 0.139 0.998 15.9 10.2 49467
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 2.25 2.32 0.973 0.797 2.7
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4EOJ 2.25 44.5 49447 2457 99.97 0.162 0.1599 0.2024 0.1821 38.105
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] 0.355 0.178 0.355 -1.153
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.76 r_dihedral_angle_4_deg 18.368 r_dihedral_angle_3_deg 14.056 r_lrange_it 9.487 r_lrange_other 9.477 r_scangle_it 6.411 r_scangle_other 6.41 r_dihedral_angle_1_deg 6.096 r_mcangle_it 5.064 r_mcangle_other 5.063
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.76 r_dihedral_angle_4_deg 18.368 r_dihedral_angle_3_deg 14.056 r_lrange_it 9.487 r_lrange_other 9.477 r_scangle_it 6.411 r_scangle_other 6.41 r_dihedral_angle_1_deg 6.096 r_mcangle_it 5.064 r_mcangle_other 5.063 r_scbond_it 4.15 r_scbond_other 4.149 r_mcbond_it 3.302 r_mcbond_other 3.302 r_angle_refined_deg 1.494 r_angle_other_deg 1.307 r_symmetry_nbd_refined 0.238 r_nbd_other 0.236 r_nbd_refined 0.208 r_symmetry_nbd_other 0.175 r_xyhbond_nbd_refined 0.172 r_nbtor_refined 0.167 r_symmetry_xyhbond_nbd_refined 0.16 r_symmetry_xyhbond_nbd_other 0.107 r_chiral_restr 0.078 r_symmetry_nbtor_other 0.076 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4580 Nucleic Acid Atoms Solvent Atoms 428 Heterogen Atoms 85
Software Software Software Name Purpose XDS data reduction Aimless data scaling PHASER phasing REFMAC refinement