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Cryo-EM structure of IrtAB in outward-occluded state in LMNG in complex with ADP-vanadate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6TEJ
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.4043 f_angle_d 0.5895 f_chiral_restr 0.0393 f_plane_restr 0.0055 f_bond_d 0.0033
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name ETHANE-PROPANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 155919 Reported Resolution (Å) 3.23 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6TEJ) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 59.9
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2500 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 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v3.0 IMAGE ACQUISITION EPU 2.9 CTF CORRECTION cryoSPARC v3.1 MODEL FITTING Coot 0.9.8.92 MODEL FITTING ISOLDE 1.3 MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT cryoSPARC v3.1 FINAL EULER ASSIGNMENT cryoSPARC v3.1 RECONSTRUCTION cryoSPARC v3.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3348520