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Crystal Structure of small molecule ARS-917 covalently bound to K-Ras G12C
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5F2E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 27% PEG 4000, 0.2 M CaCl2, 0.1 M Tris pH=8.5
Crystal Properties Matthews coefficient Solvent content 2.01 38.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.43 α = 77.45 b = 39.66 β = 81.71 c = 61.85 γ = 77.12
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2014-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.00000 APS 17-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.43 37.943 92.7 0.076 0.108 0.076 5.5 1.6 51554
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.43 1.51 89.9 0.281 0.281 0.397 0.281 2 1.6
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5F2E 1.43 37.943 49052 2501 92.72 0.1755 0.1739 0.2074 0.2327 RANDOM 13.549
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] -0.21 -0.24 0.05 0.37 0.72 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.079 r_dihedral_angle_4_deg 15.341 r_dihedral_angle_3_deg 14.682 r_dihedral_angle_1_deg 5.999 r_angle_refined_deg 2.207 r_angle_other_deg 2.175 r_chiral_restr 0.135 r_bond_refined_d 0.021 r_gen_planes_refined 0.014 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.079 r_dihedral_angle_4_deg 15.341 r_dihedral_angle_3_deg 14.682 r_dihedral_angle_1_deg 5.999 r_angle_refined_deg 2.207 r_angle_other_deg 2.175 r_chiral_restr 0.135 r_bond_refined_d 0.021 r_gen_planes_refined 0.014 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2642 Nucleic Acid Atoms Solvent Atoms 350 Heterogen Atoms 134
Software Software Software Name Purpose iMOSFLM data collection SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction iMOSFLM data reduction