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A pharmacological map of the PI3-K family defines a role for p110alpha in signaling: The structure of complex of phosphoinositide 3-kinase gamma with inhibitor PIK-90
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1E7V PDB ENTRY 1E7V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 VAPOUR DIFFUSION 1 MICROLITER PROTEIN PLUS 1 MICROLITER RESERVOIR RESERVOIR: 17% PEG 4000, 250 MM AMMONIUM SULFATE AND 100 MM TRIS PH 7.5 PROTEIN: 4 MG/ML IN 0.5 MM AMMONIUM SULFATE, 20 MM TRIS PH 7.2, 1% ETHYLENE GLYCOL, 0.02% CHAPS AND 5 MM DTT
Crystal Properties Matthews coefficient Solvent content 2.4 0.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.49 α = 90 b = 68.299 β = 95.34 c = 106.568 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC CCD TORROIDAL MIRROR 2005-01-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.5 62.3 99.8 0.07 16.2 3.68 35976 -3.7 60
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.64 99.8 0.4 2 3.73
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 1E7V 2.5 57.17 34491 1483 99.8 0.236 0.23 0.2595 0.28 0.3008 RANDOM 48.2
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] -0.75 1.12 1.02 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.932 r_dihedral_angle_3_deg 21.1 r_dihedral_angle_4_deg 19.123 r_dihedral_angle_1_deg 6.919 r_scangle_it 3.083 r_scbond_it 1.996 r_angle_refined_deg 1.666 r_mcangle_it 1.453 r_mcbond_it 0.858 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.932 r_dihedral_angle_3_deg 21.1 r_dihedral_angle_4_deg 19.123 r_dihedral_angle_1_deg 6.919 r_scangle_it 3.083 r_scbond_it 1.996 r_angle_refined_deg 1.666 r_mcangle_it 1.453 r_mcbond_it 0.858 r_nbtor_refined 0.314 r_nbd_refined 0.246 r_symmetry_vdw_refined 0.23 r_xyhbond_nbd_refined 0.165 r_symmetry_hbond_refined 0.131 r_chiral_restr 0.111 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 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 Atoms Number Protein Atoms 6837 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling TRUNCATE data scaling AMoRE phasing