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Structure of Kras in complex with inhibitor MK-1084
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 293 30% PEG 3350
0.1M pH=9 NaH2PO4/Na2HPO4
Crystal Properties Matthews coefficient Solvent content 2.65 53.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.853 α = 90 b = 93.853 β = 90 c = 121.021 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 PILATUS 300K 2020-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-X 1.54178
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.896 67.47 96.3 0.18 11.9 9.4 15176
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.896 1.985 72.7 1.6 1.4
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 FOURIER SYNTHESIS THROUGHOUT 1.9 48.54 14529 790 92.84 0.18112 0.17864 0.1888 0.22523 0.2234 RANDOM 35.942
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] 0.1 0.05 0.1 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.917 r_dihedral_angle_4_deg 20.773 r_dihedral_angle_3_deg 14.762 r_dihedral_angle_1_deg 12.611 r_long_range_B_refined 7.134 r_long_range_B_other 7.062 r_scbond_it 2.961 r_scbond_other 2.96 r_mcbond_it 2.128 r_mcbond_other 2.126
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.917 r_dihedral_angle_4_deg 20.773 r_dihedral_angle_3_deg 14.762 r_dihedral_angle_1_deg 12.611 r_long_range_B_refined 7.134 r_long_range_B_other 7.062 r_scbond_it 2.961 r_scbond_other 2.96 r_mcbond_it 2.128 r_mcbond_other 2.126 r_angle_refined_deg 1.52 r_angle_other_deg 0.516 r_chiral_restr 0.07 r_bond_refined_d 0.011 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 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_mcangle_it r_mcangle_other r_scangle_it r_scangle_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1319 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing