7OIL

mPI3Kd in complex with compound 58


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION293ethylene glycol per PEG 8000, carboxylic acids mix, buffer system 2,
Crystal Properties
Matthews coefficientSolvent content
2.0841

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 142.01α = 90
b = 64.75β = 103.39
c = 116.38γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRIGAKU SATURN A2002015-08-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU FR-E1.542

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
11.9531.1399.20.1396.23.475151
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)
11.951.991.319

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUEInternal Model1.9531.12774626375099.2510.2410.23890.289340.119
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]
0.169-0.1912.197-2.043
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.052
r_dihedral_angle_4_deg17.458
r_dihedral_angle_3_deg16.735
r_lrange_other8.715
r_lrange_it8.695
r_dihedral_angle_1_deg6.791
r_scangle_other6.346
r_scangle_it6.317
r_mcangle_other5.604
r_mcangle_it5.602
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.052
r_dihedral_angle_4_deg17.458
r_dihedral_angle_3_deg16.735
r_lrange_other8.715
r_lrange_it8.695
r_dihedral_angle_1_deg6.791
r_scangle_other6.346
r_scangle_it6.317
r_mcangle_other5.604
r_mcangle_it5.602
r_scbond_other4.056
r_scbond_it4.037
r_mcbond_it3.783
r_mcbond_other3.775
r_angle_refined_deg1.665
r_angle_other_deg1.278
r_symmetry_nbd_refined0.265
r_symmetry_xyhbond_nbd_refined0.246
r_nbd_refined0.222
r_xyhbond_nbd_refined0.202
r_nbd_other0.192
r_symmetry_nbd_other0.186
r_nbtor_refined0.169
r_symmetry_xyhbond_nbd_other0.095
r_symmetry_nbtor_other0.081
r_chiral_restr0.08
r_bond_refined_d0.01
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6675
Nucleic Acid Atoms
Solvent Atoms241
Heterogen Atoms39

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
Aimlessdata scaling
MOLREPphasing