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CryoEM structure of the SLC38A9-RagA-RagC-Ragulator complex in the pre-GAP state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6NZD
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.779 f_angle_d 0.437 f_chiral_restr 0.04 f_plane_restr 0.003 f_bond_d 0.002
Sample Complex of pentameric Ragulator, dimeric Rag GTPases and SLC38A9 Sample Components pentameric Ragulator dimeric Rag GTPases SLC38A9
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 129553 Reported Resolution (Å) 3.2 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6NZD, 6NZD, 6NZD, 6NZD, 6NZD, 6NZD, 6NZD) Refinement Space REAL Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 59
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 29000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4.1.13 MODEL FITTING UCSF Chimera MODEL REFINEMENT PHENIX RECONSTRUCTION cryoSPARC 2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1419155