5DLS

Identification of Novel, in vivo Active Chk1 Inhibitors Utilizing Structure Guided Drug Design


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1IA8 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.529210-15% PEG8K, 0.1 M Hepes pH 7.5, and 15% (v/v) 2-propanol.
Crystal Properties
Matthews coefficientSolvent content
2.855.67

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.032α = 90
b = 65.713β = 95.14
c = 58.392γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2008-12-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I020.979DiamondI02

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
12.1528.696.40.0685.52.51790517876
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)
12.152.23840.5514.72.3

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 REPLACEMENTTHROUGHOUT1IA82.1528.61698292396.250.168020.165070.22163RANDOM50.399
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]
-1.61-0.661.570.15
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.789
r_dihedral_angle_4_deg17.783
r_dihedral_angle_3_deg17.695
r_long_range_B_refined9.332
r_long_range_B_other9.277
r_scangle_other7.532
r_dihedral_angle_1_deg6.672
r_mcangle_it5.662
r_mcangle_other5.662
r_scbond_it5.156
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.789
r_dihedral_angle_4_deg17.783
r_dihedral_angle_3_deg17.695
r_long_range_B_refined9.332
r_long_range_B_other9.277
r_scangle_other7.532
r_dihedral_angle_1_deg6.672
r_mcangle_it5.662
r_mcangle_other5.662
r_scbond_it5.156
r_scbond_other4.965
r_mcbond_it3.966
r_mcbond_other3.963
r_angle_refined_deg1.898
r_angle_other_deg1.1
r_chiral_restr0.122
r_bond_refined_d0.017
r_gen_planes_refined0.009
r_bond_other_d0.002
r_gen_planes_other0.002
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2044
Nucleic Acid Atoms
Solvent Atoms109
Heterogen Atoms45

Software

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