5WPM

KRas G12V, bound to GppNHp and miniprotein 225-11(A30R)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.2 M calcium chloride and 20% PEG3350
Crystal Properties
Matthews coefficientSolvent content
2.0339.34

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.934α = 90
b = 37.81β = 103.38
c = 70.179γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152013-11-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-C1APS24-ID-C

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.7268.398.99.2327343

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONTHROUGHOUT1.7268.2821613116498.670.23720.23460.2851RANDOM35.64
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]
-0.06-0.010.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.629
r_sphericity_free34.418
r_dihedral_angle_4_deg21.635
r_dihedral_angle_3_deg14.556
r_sphericity_bonded12.548
r_dihedral_angle_1_deg5.991
r_rigid_bond_restr3.87
r_angle_refined_deg1.161
r_angle_other_deg1.011
r_chiral_restr0.059
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.629
r_sphericity_free34.418
r_dihedral_angle_4_deg21.635
r_dihedral_angle_3_deg14.556
r_sphericity_bonded12.548
r_dihedral_angle_1_deg5.991
r_rigid_bond_restr3.87
r_angle_refined_deg1.161
r_angle_other_deg1.011
r_chiral_restr0.059
r_bond_refined_d0.007
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1750
Nucleic Acid Atoms
Solvent Atoms69
Heterogen Atoms39

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
PHASERphasing