☰ Navigation Tabs
GDP-bound KRAS G12V in complex with MCB-294
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7EW9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 298 0.2 M sodium acetate, 0.1 M Tris, pH 8.5, 26% (w/v) PEG 3350.
Crystal Properties Matthews coefficient Solvent content 2.24 44.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.326 α = 90 b = 103.188 β = 107.28 c = 56.651 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 100 CCD RAYONIX MX-300 2025-02-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 1 NSRRC BL15A1
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 1.87 25 99.3 0.059 23.75 4.3 42559
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 1.87 1.94 0.48
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 1.87 23.97 40465 2066 99.21 0.18355 0.18137 0.1895 0.22777 0.2326 RANDOM 35.468
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] 2.58 1.28 -2.3 -0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.544 r_dihedral_angle_4_deg 19.816 r_dihedral_angle_3_deg 14.575 r_long_range_B_refined 7.029 r_long_range_B_other 7.028 r_dihedral_angle_1_deg 6.52 r_scangle_other 5.66 r_mcangle_it 4.12 r_mcangle_other 4.12 r_scbond_other 3.771
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.544 r_dihedral_angle_4_deg 19.816 r_dihedral_angle_3_deg 14.575 r_long_range_B_refined 7.029 r_long_range_B_other 7.028 r_dihedral_angle_1_deg 6.52 r_scangle_other 5.66 r_mcangle_it 4.12 r_mcangle_other 4.12 r_scbond_other 3.771 r_scbond_it 3.767 r_mcbond_it 3.085 r_mcbond_other 3.081 r_angle_refined_deg 1.761 r_angle_other_deg 1.62 r_chiral_restr 0.074 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_bond_other_d 0.004 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 4012 Nucleic Acid Atoms Solvent Atoms 171 Heterogen Atoms 225
Software Software Software Name Purpose REFMAC refinement SAINT data reduction SAINT data scaling PDB_EXTRACT data extraction PHASER phasing