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X-ray structure of human CDK6-Vcyclinwith the inhibitor aminopurvalanol
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 50 mM Tris/HCl pH 8.0, 0.1 M CaOAc, 13% PEG 3350, 10 mM DTT, 0.1M sulfobetaine, 1mM inhibitor, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.6 52.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.517 α = 90 b = 71.517 β = 90 c = 449.297 γ = 120
Symmetry Space Group P 65 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 1.0 ALS 5.0.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 2.78 50 96.8 0.09 15.4 18422 17833
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.78 2.88 0.995
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.8 20 16516 893 96.91 0.24071 0.23774 0.30144 0.3074 RANDOM 73.703
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] 1.26 0.63 1.26 -1.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.205 r_dihedral_angle_4_deg 23.686 r_dihedral_angle_3_deg 19.41 r_dihedral_angle_1_deg 5.967 r_scangle_it 1.815 r_angle_refined_deg 1.366 r_scbond_it 1.126 r_mcangle_it 0.75 r_mcbond_it 0.42 r_symmetry_vdw_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.205 r_dihedral_angle_4_deg 23.686 r_dihedral_angle_3_deg 19.41 r_dihedral_angle_1_deg 5.967 r_scangle_it 1.815 r_angle_refined_deg 1.366 r_scbond_it 1.126 r_mcangle_it 0.75 r_mcbond_it 0.42 r_symmetry_vdw_refined 0.311 r_nbtor_refined 0.31 r_nbd_refined 0.242 r_symmetry_hbond_refined 0.201 r_xyhbond_nbd_refined 0.16 r_chiral_restr 0.092 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4022 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction CCP4 data scaling AMoRE phasing