2XNB

Discovery and Characterisation of 2-Anilino-4-(thiazol-5-yl) pyrimidine Transcriptional CDK Inhibitors as Anticancer Agents


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2CLXPDB ENTRY 2CLX

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.810% PEG 3350, NAF, PH 7.0
Crystal Properties
Matthews coefficientSolvent content
1.8432.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.005α = 90
b = 71.108β = 90
c = 72.028γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU IMAGE PLATEBLUE MAX-FLUX CONFOCAL2004-07-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU FR-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
11.831.8898.80.087.32.63255652
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.81.8699.10.482.12.56

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 REPLACEMENTTHROUGHOUTPDB ENTRY 2CLX1.85302279576698.740.215570.212790.29378RANDOM39.293
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]
-0.662.33-1.68
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.472
r_dihedral_angle_4_deg24.623
r_dihedral_angle_3_deg21.963
r_dihedral_angle_1_deg8.852
r_scangle_it8.205
r_scbond_it6.294
r_mcangle_it4.61
r_mcbond_it3.229
r_angle_refined_deg1.689
r_mcbond_other1.146
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.472
r_dihedral_angle_4_deg24.623
r_dihedral_angle_3_deg21.963
r_dihedral_angle_1_deg8.852
r_scangle_it8.205
r_scbond_it6.294
r_mcangle_it4.61
r_mcbond_it3.229
r_angle_refined_deg1.689
r_mcbond_other1.146
r_angle_other_deg0.943
r_chiral_restr0.126
r_gen_planes_refined0.017
r_bond_refined_d0.012
r_bond_other_d0.003
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2379
Nucleic Acid Atoms
Solvent Atoms260
Heterogen Atoms27

Software

Software
Software NamePurpose
REFMACrefinement
d*TREKdata reduction
d*TREKdata scaling
MOLREPphasing