3V04

Discovery of Novel Allosteric MEK Inhibitors Possessing Classical and Non-classical Bidentate Ser212 Interactions.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1S9JPDB Entry 1S9J

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.228616-20 %w/v PEG8K, 0.1M HEPES, 250mM NH4H2PO4, 1mM TCEP, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 286K
Crystal Properties
Matthews coefficientSolvent content
3.3262.92

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 82.113α = 90
b = 82.113β = 90
c = 129.303γ = 120
Symmetry
Space GroupP 62

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray200CCDADSC QUANTUM 3152008-07-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.21.0ALS5.0.2

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
12.73099.90.06222.885.3136121363.53

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)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 1S9J2.7202136121290865199.970.213320.211870.24295RANDOM78.628
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]
1.170.591.17-1.76
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.779
r_dihedral_angle_4_deg15.355
r_dihedral_angle_3_deg14.462
r_dihedral_angle_1_deg5.551
r_mcangle_it2.838
r_scangle_it2.454
r_mcbond_it1.651
r_scbond_it1.405
r_angle_refined_deg1.049
r_angle_other_deg0.722
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.779
r_dihedral_angle_4_deg15.355
r_dihedral_angle_3_deg14.462
r_dihedral_angle_1_deg5.551
r_mcangle_it2.838
r_scangle_it2.454
r_mcbond_it1.651
r_scbond_it1.405
r_angle_refined_deg1.049
r_angle_other_deg0.722
r_symmetry_vdw_refined0.521
r_symmetry_vdw_other0.214
r_nbd_other0.199
r_mcbond_other0.191
r_nbd_refined0.179
r_nbtor_refined0.174
r_xyhbond_nbd_refined0.143
r_nbtor_other0.081
r_chiral_restr0.055
r_metal_ion_refined0.024
r_symmetry_hbond_refined0.018
r_bond_refined_d0.007
r_bond_other_d0.002
r_gen_planes_refined0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2261
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms57

Software

Software
Software NamePurpose
ADSCdata collection
AMoREphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling