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KRAS G12C in bound to quinazoline based switch II pocket (SWIIP) binder
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4OBE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 6.9 277 1.8M sodium phosphate monobasic monohydrate, potassium phosphate dibasic pH6.9
Crystal Properties Matthews coefficient Solvent content 2.36 47.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.933 α = 90 b = 84.933 β = 90 c = 130.785 γ = 120
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 2016-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.979 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.23 50 99.8 0.183 0.195 0.068 3.6 7.8 51433 31.44
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.23 2.27 99.7 1.536 1.697 0.706 0.476 5 2569
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4OBE 2.228 40.391 1.96 45198 1976 87.67 0.1717 0.1692 0.1726 0.228 0.2317 41.4951
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.48 f_angle_d 1.003 f_chiral_restr 0.054 f_bond_d 0.009 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8082 Nucleic Acid Atoms Solvent Atoms 374 Heterogen Atoms 342
Software Software Software Name Purpose PHENIX refinement PDB_EXTRACT data extraction HKL-3000 data scaling HKL-3000 data reduction PHASER phasing