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Structure of the human neutral amino acid transporter ASCT2 in complex with nanobody 469
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6GCT
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.1178 f_angle_d 0.5452 f_chiral_restr 0.0412 f_plane_restr 0.005 f_bond_d 0.0035
Sample Complex of human ASCT2 with Nanobody 69 Sample Components Alanine Serine Cysteine Transporter 2 Nanobody 69
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 441100 Reported Resolution (Å) 2.31 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C3
Map-Model Fitting and Refinement Id 1 (6GCT) Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target Overall B Value 77.4 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 52.24
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 600 Maximum Defocus (nm) 1500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 3.3.2 IMAGE ACQUISITION EPU 2 CTF CORRECTION cryoSPARC 3.3.2 MODEL FITTING UCSF Chimera 1.16 MODEL REFINEMENT PHENIX 1.20.1 INITIAL EULER ASSIGNMENT cryoSPARC 3.3.2 FINAL EULER ASSIGNMENT cryoSPARC 3.3.2 CLASSIFICATION cryoSPARC 3.3.2 RECONSTRUCTION cryoSPARC 3.3.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1346125