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Human KRas4A (GDP) in complex with compound 15
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 8.7 292 25% PEG 8000, 500 mM LiCl, 100 mM bis-tris propane
Crystal Properties Matthews coefficient Solvent content 2.1 41.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.01 α = 90 b = 40.14 β = 90 c = 110.66 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 2016-10-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97632 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 1.14 37.01 100 0.047 0.052 0.021 18.2 5.9 61058 10.387
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.14 1.16 97.8 0.9 0.479 1.6 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.14 35.12 57986 2993 99.83 0.1648 0.1634 0.1717 0.1926 0.1975 RANDOM 15.899
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] 0.33 -0.32 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.972 r_dihedral_angle_4_deg 16.363 r_dihedral_angle_3_deg 12.77 r_dihedral_angle_1_deg 5.066 r_angle_other_deg 2.354 r_rigid_bond_restr 2.227 r_angle_refined_deg 2.094 r_mcangle_it 1.903 r_mcbond_it 1.54 r_mcbond_other 1.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.972 r_dihedral_angle_4_deg 16.363 r_dihedral_angle_3_deg 12.77 r_dihedral_angle_1_deg 5.066 r_angle_other_deg 2.354 r_rigid_bond_restr 2.227 r_angle_refined_deg 2.094 r_mcangle_it 1.903 r_mcbond_it 1.54 r_mcbond_other 1.54 r_chiral_restr 0.132 r_bond_other_d 0.035 r_bond_refined_d 0.017 r_gen_planes_other 0.016 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1362 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms 77
Software Software Software Name Purpose REFMAC refinement xia2 data scaling PDB_EXTRACT data extraction XDS data reduction