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Human adult muscle nAChR in resting state in detergent with alpha-bungarotoxin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold P02708 in silico model AlphaFold P11230 in silico model AlphaFold Q07001 in silico model AlphaFold Q04844
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.6665 f_angle_d 0.4972 f_chiral_restr 0.0422 f_plane_restr 0.0045 f_bond_d 0.0024
Sample Human adult muscle nAChR in resting state in detergent with alpha-bungarotoxin
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blot time 2s, blot force -10
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 31022 Reported Resolution (Å) 2.96 Resolution Method FSC 0.143 CUT-OFF Other Details Non-uniform refinement Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details Initial fitting of alphafold models using chimeraX followed by manual rebuilding in COOT and final refinement in ISOLDE and PHENIX
Data Acquisition Detector Type TFS FALCON 4i (4k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1200 Maximum Defocus (nm) 2400 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 objective aperture 70 um
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 3.3.1 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 3.3.1 MODEL FITTING UCSF ChimeraX 1.6.1 MODEL FITTING Coot 0.9.8 MODEL FITTING ISOLDE INITIAL EULER ASSIGNMENT cryoSPARC 3.3.1 FINAL EULER ASSIGNMENT cryoSPARC 3.3.1 CLASSIFICATION RELION 3.1.3 RECONSTRUCTION cryoSPARC 3.3.1 MODEL REFINEMENT PHENIX 1.21.1_5286
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1249235 Extracted by topaz picking