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Structure of Tra1 subunit within the chromatin modifying complex SAGA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JSN
Sample Tra1 subunit of SAGA complex
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Blot for 1 second before plunging
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 105916 Reported Resolution (Å) 5.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (4JSN) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details Secondary structure restraints were applied in Phenix.
Data Acquisition Detector Type FEI FALCON II (4k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1400 Maximum Defocus (nm) 3400 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 0.001 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 59000 Calibrated Magnification 127272 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Gautomatch 0.53 IMAGE ACQUISITION EPU 1.4.3.1159REL CTF CORRECTION Gctf 0.50 CTF CORRECTION CTFFIND 4.0.15 MODEL FITTING UCSF Chimera 1.9 MODEL FITTING Situs 2.6 FINAL EULER ASSIGNMENT RELION 1.4 RECONSTRUCTION RELION 1.4 MODEL REFINEMENT Coot 0.8.7 MODEL REFINEMENT PHENIX 1.11
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION Full CTF correction in Relion 264901