2UZI

Crystal structure of HRAS(G12V) - anti-RAS Fv complex


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1AGPPDB ENTRY 1AGP, 1A2Y
experimental modelPDB 1A2YPDB ENTRY 1AGP, 1A2Y

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1PROTEIN WAS CRYSTALLIZED FROM 17-18 % PEG3350, 400 MM ZINC ACETATE, 100 MM SODIUM CACODYLATE, PH 5.8, 0.03 % DICHLOROMETHANE
Crystal Properties
Matthews coefficientSolvent content
2.1538.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 75.528α = 90
b = 84.632β = 90
c = 62.592γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2005-11-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-4ESRFID14-4

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
1250.3298.20.110.423.38272143.7
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.0297.20.362.673.35

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1AGP, 1A2Y241.8925816136997.90.1980.1940.271RANDOM24.27
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.865
r_dihedral_angle_4_deg20.435
r_dihedral_angle_3_deg16.388
r_dihedral_angle_1_deg6.885
r_scangle_it4.154
r_scbond_it2.87
r_angle_refined_deg1.812
r_mcangle_it1.796
r_mcbond_it1.183
r_symmetry_hbond_refined0.419
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.865
r_dihedral_angle_4_deg20.435
r_dihedral_angle_3_deg16.388
r_dihedral_angle_1_deg6.885
r_scangle_it4.154
r_scbond_it2.87
r_angle_refined_deg1.812
r_mcangle_it1.796
r_mcbond_it1.183
r_symmetry_hbond_refined0.419
r_nbtor_refined0.309
r_symmetry_vdw_refined0.283
r_nbd_refined0.243
r_xyhbond_nbd_refined0.2
r_chiral_restr0.142
r_bond_refined_d0.019
r_gen_planes_refined0.007
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3003
Nucleic Acid Atoms
Solvent Atoms289
Heterogen Atoms38

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
TRUNCATEdata scaling
AMoREphasing