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Electron crystallographic structure of TIA-1 prion-like domain, wild type sequence
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7VI4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.57 α = 90 b = 43.57 β = 90 c = 9.63 γ = 120
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B ELECTRON CRYSTALLOGRAPHY MOLECULAR REPLACEMENT THROUGHOUT 7VI4 1.761 18.866 1.42 1149 114 99.91 0.2839 0.2772 0.2842 0.3473 0.3584 12.1368
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 9.935 f_angle_d 1.072 f_chiral_restr 0.08 f_bond_d 0.009 f_plane_restr 0.005
Software Software Software Name Purpose PHENIX refinement XSCALE data scaling PDB_EXTRACT data extraction
Sample Region 2 peptides (G377-Q386) of TIA-1 prion-like domain, wild-type
Specimen Preparation Sample Aggregation State FILAMENT
3D Reconstruction Reconstruction Method CRYSTALLOGRAPHY Number of Particles Reported Resolution (Å) Resolution Method DIFFRACTION PATTERN/LAYERLINES Other Details Refinement Type Symmetry Type 3D CRYSTAL Space Group Name Length a 43.57 Length b 43.57 Length c 43.57 Angle Alpha 120 Angle Beta 90 Angle Gamma 120
Map-Model Fitting and Refinement Id 1 Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type DIRECT ELECTRON DE-64 (8k x 8k) Electron Dose (electrons/Å**2) 0.02
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model JEOL CRYO ARM 300 Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode DIFFRACTION Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE