☰ Navigation Tabs
Human KRas4A (GMPPNP) in complex with compound 31
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other unreleased crystal structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 292 24% PEG 3350, 100 mM MgCl2, 10 mM CoCl2, 100 mM HEPES
Crystal Properties Matthews coefficient Solvent content 2.12 41.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.254 α = 90 b = 34.866 β = 108.63 c = 69.575 γ = 90
Symmetry Space Group C 1 2 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 PIXEL DECTRIS EIGER X 16M 2020-12-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
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 1.37 28.78 99.4 0.031 0.036 0.02 1 19.4 3.4 34572
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 1.37 1.41 96 0.61 0.729 0.394 0.828 3.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.37 28.78 32779 1711 99.15 0.1797 0.1771 0.2311 0.2411 RANDOM 23.237
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] -0.37 -0.31 1.76 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.605 r_dihedral_angle_4_deg 17.791 r_dihedral_angle_3_deg 13.601 r_dihedral_angle_1_deg 4.159 r_mcangle_it 3.192 r_rigid_bond_restr 3.127 r_mcbond_it 2.835 r_mcbond_other 2.833 r_angle_other_deg 2.438 r_angle_refined_deg 2.289
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.605 r_dihedral_angle_4_deg 17.791 r_dihedral_angle_3_deg 13.601 r_dihedral_angle_1_deg 4.159 r_mcangle_it 3.192 r_rigid_bond_restr 3.127 r_mcbond_it 2.835 r_mcbond_other 2.833 r_angle_other_deg 2.438 r_angle_refined_deg 2.289 r_chiral_restr 0.131 r_bond_other_d 0.034 r_bond_refined_d 0.022 r_gen_planes_other 0.022 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1301 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms 77
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction