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Crystal structure of p110alpha H1047R mutant in complex with niSH2 of p85alpha
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2RD0 PDB entry 2RD0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 298 Na formate, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.11 60.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.316 α = 90 b = 120.697 β = 90 c = 153.963 γ = 90
Symmetry Space Group P 21 21 21
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 MAR CCD 165 mm 2009-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97929 APS 31-ID
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 3.3 50 99.5 0.086 17.904 6.8 32822
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) 3.3 3.42 98.3 0.481 5.7
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 FOURIER SYNTHESIS THROUGHOUT PDB entry 2RD0 3.3 47.51 31164 1658 99.49 0.26342 0.25983 0.2608 0.33271 0.3315 RANDOM 74.204
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] -1.84 6.31 -4.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.193 r_dihedral_angle_3_deg 23.187 r_dihedral_angle_4_deg 17.536 r_dihedral_angle_1_deg 7.454 r_scangle_it 1.539 r_angle_refined_deg 1.431 r_mcangle_it 0.928 r_scbond_it 0.922 r_mcbond_it 0.513 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.193 r_dihedral_angle_3_deg 23.187 r_dihedral_angle_4_deg 17.536 r_dihedral_angle_1_deg 7.454 r_scangle_it 1.539 r_angle_refined_deg 1.431 r_mcangle_it 0.928 r_scbond_it 0.922 r_mcbond_it 0.513 r_nbtor_refined 0.316 r_symmetry_vdw_refined 0.252 r_nbd_refined 0.246 r_symmetry_hbond_refined 0.205 r_xyhbond_nbd_refined 0.179 r_chiral_restr 0.105 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10384 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection REFMAC phasing