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Cryo-EM structure of the V1 domain of V/A-ATPase in liposomes under pmf condition, state1N
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6QUM
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 4.6944 f_angle_d 0.4996 f_chiral_restr 0.0439 f_plane_restr 0.0048 f_bond_d 0.0022
Sample Vo domain of V/A-ATPase from Thermus thermophilus
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 41646 Reported Resolution (Å) 3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (6QUM) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1400 Maximum Defocus (nm) 1600 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 60000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Topaz CTF CORRECTION CTFFIND 4.1.8 MODEL FITTING Coot 0.9.4 MODEL FITTING ISOLDE 1.6 MODEL REFINEMENT PHENIX 1.2 INITIAL EULER ASSIGNMENT cryoSPARC 4.6 FINAL EULER ASSIGNMENT cryoSPARC 4.6 CLASSIFICATION cryoSPARC 4.6 RECONSTRUCTION cryoSPARC 4.6
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 4064082