2C3L

Identification of a buried pocket for potent and selective inhibition of Chk1: prediction and verification


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1IA8PDB ENTRY 1IA8

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.5pH 7.50
Crystal Properties
Matthews coefficientSolvent content
2.5551.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 44.98α = 90
b = 65.862β = 94.63
c = 58.086γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IVBLUE OSMIC MIRRORS2003-06-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH3R

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
12.353095.10.099.62142172
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)
12.352.4182.90.353.71

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 1IA82.3565.941287567295.30.1890.1850.279RANDOM45.92
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]
-1.27-1.070.440.65
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg24.033
r_dihedral_angle_4_deg21.093
r_dihedral_angle_1_deg7.805
r_scangle_it5.41
r_scbond_it3.593
r_angle_refined_deg2.289
r_mcangle_it2.266
r_mcbond_it1.279
r_symmetry_hbond_refined0.472
r_symmetry_vdw_refined0.335
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg24.033
r_dihedral_angle_4_deg21.093
r_dihedral_angle_1_deg7.805
r_scangle_it5.41
r_scbond_it3.593
r_angle_refined_deg2.289
r_mcangle_it2.266
r_mcbond_it1.279
r_symmetry_hbond_refined0.472
r_symmetry_vdw_refined0.335
r_nbd_refined0.247
r_xyhbond_nbd_refined0.217
r_chiral_restr0.177
r_bond_refined_d0.025
r_gen_planes_refined0.009
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_2_deg
r_gen_planes_other
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_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 Atoms2142
Nucleic Acid Atoms
Solvent Atoms233
Heterogen Atoms23

Software

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