☰ Navigation Tabs
Crystal structure of human KRAS G12C covalently bound to AM-8719
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6OIM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 200mM lithium sulfate, 100mM TRIS, 30% PEG 4000, 5mM magnesium chloride
Crystal Properties Matthews coefficient Solvent content 2.43 49.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.34 α = 90 b = 94.34 β = 90 c = 119.531 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 PIXEL DECTRIS PILATUS3 6M 2022-08-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08B1-1 1.1807 CLSI 08B1-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.9 50 99.8 0.097 0.999 14.59 6.85 31218
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2.02 99.1 1.95 0.407 0.91 6.53
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.9 29.9 15557 766 99.86 0.21735 0.21508 0.223 0.26416 0.2648 RANDOM 30.294
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] -0.01 -0.01 -0.01 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.172 r_dihedral_angle_4_deg 14.774 r_dihedral_angle_3_deg 14.016 r_dihedral_angle_1_deg 6.053 r_long_range_B_refined 3.61 r_long_range_B_other 3.466 r_mcangle_it 1.813 r_mcangle_other 1.812 r_scangle_other 1.604 r_angle_refined_deg 1.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.172 r_dihedral_angle_4_deg 14.774 r_dihedral_angle_3_deg 14.016 r_dihedral_angle_1_deg 6.053 r_long_range_B_refined 3.61 r_long_range_B_other 3.466 r_mcangle_it 1.813 r_mcangle_other 1.812 r_scangle_other 1.604 r_angle_refined_deg 1.299 r_angle_other_deg 1.088 r_mcbond_it 1.004 r_mcbond_other 1.004 r_scbond_it 0.914 r_scbond_other 0.913 r_chiral_restr 0.04 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1355 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 73
Software Software Software Name Purpose XDS data reduction XDS data scaling MOLREP phasing REFMAC refinement Coot model building PDB_EXTRACT data extraction