2UZS

A transforming mutation in the pleckstrin homology domain of AKT1 in cancer (AKT1-PH_E17K)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UNQPDB ENTRY 1UNQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5GROWN FROM HANGING DROPS IN 0.1 M HEPES PH 7.5 AND 1.4 M SODIUM CITRATE, OR 0.1 M ACETATE PH 4.6, 0.2 M AMMONIUM ACETATE AND 15%-30% PEG 3350,
Crystal Properties
Matthews coefficientSolvent content
1.6425.27

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.299α = 90
b = 32.711β = 116.67
c = 41.983γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMIRRORS2006-07-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-IDAPS17-ID

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
12.4637.5970.0813.5236472
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)
12.452.5488.90.139.51.54

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 1UNQ2.4637.53335217696.80.2110.2070.286RANDOM26.66
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]
1.230.15-0.05-1.05
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.823
r_dihedral_angle_3_deg21.337
r_dihedral_angle_4_deg13.89
r_dihedral_angle_1_deg7.051
r_scangle_it2.302
r_angle_refined_deg1.542
r_scbond_it1.451
r_mcangle_it1.341
r_mcbond_it0.734
r_symmetry_hbond_refined0.535
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.823
r_dihedral_angle_3_deg21.337
r_dihedral_angle_4_deg13.89
r_dihedral_angle_1_deg7.051
r_scangle_it2.302
r_angle_refined_deg1.542
r_scbond_it1.451
r_mcangle_it1.341
r_mcbond_it0.734
r_symmetry_hbond_refined0.535
r_symmetry_vdw_refined0.383
r_nbtor_refined0.315
r_nbd_refined0.25
r_xyhbond_nbd_refined0.188
r_chiral_restr0.099
r_bond_refined_d0.012
r_gen_planes_refined0.005
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 Atoms985
Nucleic Acid Atoms
Solvent Atoms40
Heterogen Atoms28

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing