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Human KRas4A (GDP) in complex with compound 11
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 292 27.5% PEG 8000, 400 mM LiCl
Crystal Properties Matthews coefficient Solvent content 2.09 41.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.88 α = 90 b = 40.24 β = 90 c = 110.57 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 PILATUS3 6M 2015-05-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.31 22.78 99.7 0.084 0.101 0.041 10.8 6.2 40396 13.649
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.31 1.34 100 1.221 1.45 0.578 1.3 6.1
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 1.31 22.78 38327 2003 99.65 0.1423 0.1409 0.1513 0.1687 0.1722 RANDOM 18.647
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] -0.92 0.64 0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.397 r_dihedral_angle_4_deg 21.543 r_dihedral_angle_3_deg 13.708 r_dihedral_angle_1_deg 4.631 r_rigid_bond_restr 3.715 r_mcangle_it 3.188 r_mcbond_it 2.555 r_mcbond_other 2.548 r_angle_other_deg 2.378 r_angle_refined_deg 2.029
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.397 r_dihedral_angle_4_deg 21.543 r_dihedral_angle_3_deg 13.708 r_dihedral_angle_1_deg 4.631 r_rigid_bond_restr 3.715 r_mcangle_it 3.188 r_mcbond_it 2.555 r_mcbond_other 2.548 r_angle_other_deg 2.378 r_angle_refined_deg 2.029 r_chiral_restr 0.13 r_bond_other_d 0.035 r_bond_refined_d 0.019 r_gen_planes_other 0.012 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1368 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement xia2 data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing