☰ Navigation Tabs
ASCT2 protomer in lipid nanodiscs under low Na+ concentration in the intermediate outward-facing state (iOFS-up)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6MPB
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 3.668 f_angle_d 0.448 f_chiral_restr 0.035 f_plane_restr 0.004 f_bond_d 0.002
Sample ASCT2 in MSP2N2 lipid nanodiscs in the presence of K+ ions
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 132084 Reported Resolution (Å) 3 Resolution Method FSC 0.143 CUT-OFF Other Details The number of particles is the number of protomers from C3 expanded particles Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6MPB) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 50.9
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 500 Maximum Defocus (nm) 1900 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 130000 Calibrated Magnification 48924 Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION crYOLO 1.7.6 IMAGE ACQUISITION SerialEM 4.0 CTF CORRECTION CTFFIND 4.1.14 MODEL FITTING Coot 0.9.6 MODEL FITTING ISOLDE 1.6.0 INITIAL EULER ASSIGNMENT cryoSPARC 3.3.1 FINAL EULER ASSIGNMENT RELION 3.1.0 RECONSTRUCTION RELION 3.1.0 MODEL REFINEMENT PHENIX 1.20.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3256089