2F2C

X-ray structure of human CDK6-Vcyclinwith the inhibitor aminopurvalanol


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP829350 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 coefficientSolvent content
2.652.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 71.517α = 90
b = 71.517β = 90
c = 449.297γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.11.0ALS5.0.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.785096.80.0915.41842217833
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.782.880.995

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2.8201651689396.910.240710.237740.30144RANDOM73.703
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]
1.260.631.26-1.89
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.205
r_dihedral_angle_4_deg23.686
r_dihedral_angle_3_deg19.41
r_dihedral_angle_1_deg5.967
r_scangle_it1.815
r_angle_refined_deg1.366
r_scbond_it1.126
r_mcangle_it0.75
r_mcbond_it0.42
r_symmetry_vdw_refined0.311
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.205
r_dihedral_angle_4_deg23.686
r_dihedral_angle_3_deg19.41
r_dihedral_angle_1_deg5.967
r_scangle_it1.815
r_angle_refined_deg1.366
r_scbond_it1.126
r_mcangle_it0.75
r_mcbond_it0.42
r_symmetry_vdw_refined0.311
r_nbtor_refined0.31
r_nbd_refined0.242
r_symmetry_hbond_refined0.201
r_xyhbond_nbd_refined0.16
r_chiral_restr0.092
r_bond_refined_d0.011
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4022
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms37

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
CCP4data scaling
AMoREphasing