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KRAS-G12V-D92C covalently bound to BI-1830
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8R7W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.1 M BIS-TRIS propane pH 7.5, 10% ethylene glycol, 20% PEG 3350, 0.2 M sodium fluoride
Crystal Properties Matthews coefficient Solvent content 2.15 42.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.871 α = 90 b = 116.558 β = 108.636 c = 68.642 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 193 PIXEL DECTRIS EIGER2 X 16M 2023-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.999905 SLS X10SA
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 1.5 58.28 99.4 0.078 9.8 6.7 103561
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 1.5 1.53 1.042
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 (All) 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 1.5 39.155 103561 5060 99.371 0.207 0.2054 0.2092 0.2393 0.2414 RANDOM 28.417
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] 49.476 2.908 -14.031 -35.445
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 27.923 r_dihedral_angle_6_deg 17.089 r_scangle_it 16.853 r_rigid_bond_restr 15.357 r_dihedral_angle_2_deg 14.214 r_scbond_it 12.909 r_dihedral_angle_3_deg 12.699 r_mcangle_it 12.623 r_mcbond_it 9.975 r_dihedral_angle_1_deg 5.811
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 27.923 r_dihedral_angle_6_deg 17.089 r_scangle_it 16.853 r_rigid_bond_restr 15.357 r_dihedral_angle_2_deg 14.214 r_scbond_it 12.909 r_dihedral_angle_3_deg 12.699 r_mcangle_it 12.623 r_mcbond_it 9.975 r_dihedral_angle_1_deg 5.811 r_angle_refined_deg 1.928 r_nbtor_refined 0.311 r_symmetry_nbd_refined 0.226 r_nbd_refined 0.218 r_xyhbond_nbd_refined 0.21 r_symmetry_xyhbond_nbd_refined 0.165 r_chiral_restr 0.123 r_ncsr_local_group_6 0.098 r_ncsr_local_group_4 0.093 r_ncsr_local_group_3 0.088 r_ncsr_local_group_5 0.088 r_ncsr_local_group_1 0.085 r_ncsr_local_group_2 0.077 r_gen_planes_refined 0.017 r_bond_refined_d 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4939 Nucleic Acid Atoms Solvent Atoms 374 Heterogen Atoms 216
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction PHASER phasing