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Crystal structure of human PI3K-gamma in complex with CH5039699
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1E8Y PDB ENTRY 1E8Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 293 20% PEG3350, 0.2M (NH4)2SO4, 0.1M Tris-HCl, streak seeding, pH 7.2, vapor diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.4 47.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.22 α = 90 b = 67.87 β = 95.38 c = 106.6 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 95 CCD ADSC QUANTUM 315 mirrors 2005-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.816 62.235 99.4 0.049 0.049 18.3 3.7 24974 24974
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) 2.82 2.89 99.17 0.69 3.77 1825
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 1E8Y 2.82 62.23 24974 1271 100 0.2449 0.241 0.2311 0.3148 0.3054 RANDOM 67.4645
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] -1.2 0.92 2.73 -1.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.126 r_dihedral_angle_3_deg 19.824 r_dihedral_angle_4_deg 17.154 r_scangle_it 7.329 r_dihedral_angle_1_deg 7.18 r_scbond_it 4.994 r_mcangle_it 3.682 r_mcbond_it 2.099 r_angle_refined_deg 1.414 r_angle_other_deg 0.907
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.126 r_dihedral_angle_3_deg 19.824 r_dihedral_angle_4_deg 17.154 r_scangle_it 7.329 r_dihedral_angle_1_deg 7.18 r_scbond_it 4.994 r_mcangle_it 3.682 r_mcbond_it 2.099 r_angle_refined_deg 1.414 r_angle_other_deg 0.907 r_mcbond_other 0.447 r_chiral_restr 0.073 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6567 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms 41
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction MOLREP phasing