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B-Raf V600E Kinase Domain Bound to a Type II Dihydroquinazoline Inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 100 mM Tris, 16% PEG 8000, 100 mM NDSB-256, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.8 56.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.82 α = 90 b = 96.82 β = 90 c = 168.718 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315r 2009-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 0.979 SSRL BL7-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 3.2 30 99.1 0.146 5 3.8 13852 13727
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.2 3.37 99.6 0.368 2 4 1957
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3.2 29.24 13852 13001 678 100 0.22903 0.22646 0.2767 0.2384 RANDOM 36.21
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] 0.82 0.82 -1.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.478 r_dihedral_angle_3_deg 18.455 r_dihedral_angle_4_deg 18.066 r_dihedral_angle_1_deg 5.179 r_angle_refined_deg 1.005 r_scangle_it 0.83 r_mcangle_it 0.655 r_scbond_it 0.469 r_mcbond_it 0.361 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.478 r_dihedral_angle_3_deg 18.455 r_dihedral_angle_4_deg 18.066 r_dihedral_angle_1_deg 5.179 r_angle_refined_deg 1.005 r_scangle_it 0.83 r_mcangle_it 0.655 r_scbond_it 0.469 r_mcbond_it 0.361 r_nbtor_refined 0.306 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.186 r_xyhbond_nbd_refined 0.129 r_symmetry_hbond_refined 0.103 r_chiral_restr 0.072 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4174 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 68
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing