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B-Raf V600E kinase domain in complex with an aminoisoquinoline inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UWH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.6 298 17% PEG 8000, 75 mM sodium succinate, 0.1 M Tris, pH 8.6, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.64 53.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.457 α = 90 b = 93.457 β = 90 c = 166.679 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 315 2007-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0000 ALS 5.0.2
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 2.7 30 93.8 0.133 15.3 5.9 21050 19744 61.5
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 2.7 2.8 68.7 0.37 2 2.5 1399
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1UWH 2.7 30 19724 1556 94 0.206 0.201 0.264 0.248 RANDOM 43.574
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] 0.47 0.47 -0.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.593 r_dihedral_angle_4_deg 20.5 r_dihedral_angle_3_deg 18.17 r_dihedral_angle_1_deg 5.415 r_scangle_it 1.866 r_mcangle_it 1.416 r_scbond_it 1.179 r_angle_refined_deg 1.13 r_mcbond_it 0.798 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.593 r_dihedral_angle_4_deg 20.5 r_dihedral_angle_3_deg 18.17 r_dihedral_angle_1_deg 5.415 r_scangle_it 1.866 r_mcangle_it 1.416 r_scbond_it 1.179 r_angle_refined_deg 1.13 r_mcbond_it 0.798 r_nbtor_refined 0.309 r_symmetry_vdw_refined 0.219 r_nbd_refined 0.199 r_symmetry_hbond_refined 0.142 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.079 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4085 Nucleic Acid Atoms Solvent Atoms 79 Heterogen Atoms 70
Software Software Software Name Purpose SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction EPMR phasing