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Human KRas4A (GDP) in complex with compound 14
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 2.1 41.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.959 α = 90 b = 40.278 β = 90 c = 110.665 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 PILATUS 6M-F 2016-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97949 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 1.19 27.67 97 0.039 0.043 0.017 1 21.6 5.9 52205
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 1.19 1.22 75.8 0.68 0.795 0.401 0.599 3.6
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 1.19 27.67 49566 2571 96.74 0.1549 0.1538 0.163 0.1776 0.1826 RANDOM 16.244
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] -0.15 0.04 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.966 r_dihedral_angle_4_deg 18.424 r_dihedral_angle_3_deg 13.399 r_dihedral_angle_1_deg 4.889 r_rigid_bond_restr 2.396 r_angle_other_deg 2.364 r_mcangle_it 2.102 r_angle_refined_deg 2.069 r_mcbond_it 1.72 r_mcbond_other 1.717
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.966 r_dihedral_angle_4_deg 18.424 r_dihedral_angle_3_deg 13.399 r_dihedral_angle_1_deg 4.889 r_rigid_bond_restr 2.396 r_angle_other_deg 2.364 r_mcangle_it 2.102 r_angle_refined_deg 2.069 r_mcbond_it 1.72 r_mcbond_other 1.717 r_chiral_restr 0.131 r_bond_other_d 0.035 r_bond_refined_d 0.018 r_gen_planes_other 0.015 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1368 Nucleic Acid Atoms Solvent Atoms 136 Heterogen Atoms 73
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction