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Crystal structure of mTOR(deltaN)-mLST8-PRAS40(beta-strand) complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JSN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 289 tacsimate
Crystal Properties Matthews coefficient Solvent content 3.23 66.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 138.926 α = 90 b = 163.044 β = 90 c = 206.666 γ = 90
Symmetry Space Group P 2 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 ADSC QUANTUM 315 2014-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97920 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 3.1 80 97.2 0.113 0.131 0.064 4.6 3.9 71263
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.1 3.11 98.5 0.692 0.798 0.386 0.826 4
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 4JSN 3.1 50.01 69072 1707 82.54 0.2339 0.23287 0.2352 0.27587 0.2776 RANDOM 98.723
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] -0.89 -4.64 5.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.153 r_dihedral_angle_3_deg 16.33 r_dihedral_angle_4_deg 11.396 r_long_range_B_refined 7.811 r_long_range_B_other 7.811 r_dihedral_angle_1_deg 6.29 r_scangle_other 5.03 r_mcangle_it 4.892 r_mcangle_other 4.892 r_scbond_it 2.913
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.153 r_dihedral_angle_3_deg 16.33 r_dihedral_angle_4_deg 11.396 r_long_range_B_refined 7.811 r_long_range_B_other 7.811 r_dihedral_angle_1_deg 6.29 r_scangle_other 5.03 r_mcangle_it 4.892 r_mcangle_other 4.892 r_scbond_it 2.913 r_scbond_other 2.913 r_mcbond_it 2.869 r_mcbond_other 2.869 r_angle_refined_deg 1.148 r_angle_other_deg 0.901 r_chiral_restr 0.064 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22243 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling PDB_EXTRACT data extraction HKL-2000 data reduction PHASER phasing