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KRAS-169 Q61H GPPNHP + CH-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GFT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 8-15% w/v polyethylene glycol 3350 and 0.2 M Lithium citrate
Crystal Properties Matthews coefficient Solvent content 2.49 50.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.187 α = 90 b = 118.032 β = 90 c = 156.371 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 16M 2017-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.9763 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.2 156 100 0.097 0.108 0.047 0.998 15.6 9.6 60229
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 2.2 2.26 99.8 0.83 0.939 0.43 0.908 3.3 8.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3GFT 2.2 94.21 57101 3016 99.86 0.20302 0.20161 0.2094 0.23026 0.2359 RANDOM 40.235
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] -1.2 3.24 -2.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.931 r_dihedral_angle_3_deg 15.173 r_dihedral_angle_4_deg 14.068 r_long_range_B_refined 9.94 r_long_range_B_other 9.939 r_scangle_other 8.279 r_dihedral_angle_1_deg 5.993 r_mcangle_it 5.459 r_mcangle_other 5.459 r_scbond_other 5.269
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.931 r_dihedral_angle_3_deg 15.173 r_dihedral_angle_4_deg 14.068 r_long_range_B_refined 9.94 r_long_range_B_other 9.939 r_scangle_other 8.279 r_dihedral_angle_1_deg 5.993 r_mcangle_it 5.459 r_mcangle_other 5.459 r_scbond_other 5.269 r_scbond_it 5.268 r_mcbond_it 3.707 r_mcbond_other 3.706 r_angle_refined_deg 1.45 r_angle_other_deg 0.481 r_chiral_restr 0.062 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.001 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 7779 Nucleic Acid Atoms Solvent Atoms 95 Heterogen Atoms 276
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing