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Crystal structure of mTOR(deltaN)-mLST8-PRAS40(alpha-helix & 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 277 PEG 8000
Crystal Properties Matthews coefficient Solvent content 3.27 66.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 139.4 α = 90 b = 163.2 β = 90 c = 207.8 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 3.4 80 95.5 0.136 0.158 0.079 4.5 3.7 61593
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 3.4 3.52 86.5 0.59 0.711 0.386 0.77 2.8 5497
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 3.42 50.01 51360 1305 81.46 0.23531 0.23455 0.2361 0.266 0.2465 RANDOM 117.431
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] -0.1 -5.77 5.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.864 r_dihedral_angle_3_deg 18.571 r_dihedral_angle_4_deg 13.934 r_long_range_B_refined 8.313 r_long_range_B_other 8.312 r_dihedral_angle_1_deg 6.971 r_scangle_other 5.166 r_mcangle_it 5.103 r_mcangle_other 5.102 r_mcbond_it 2.965
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.864 r_dihedral_angle_3_deg 18.571 r_dihedral_angle_4_deg 13.934 r_long_range_B_refined 8.313 r_long_range_B_other 8.312 r_dihedral_angle_1_deg 6.971 r_scangle_other 5.166 r_mcangle_it 5.103 r_mcangle_other 5.102 r_mcbond_it 2.965 r_mcbond_other 2.965 r_scbond_it 2.875 r_scbond_other 2.875 r_angle_refined_deg 1.302 r_angle_other_deg 1.003 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 22553 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