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MscS in Glyco-DIBMA Native Nanodiscs (C7 symmetry)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7ONL
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.893 f_angle_d 0.419 f_chiral_restr 0.042 f_plane_restr 0.003 f_bond_d 0.002
Sample MscS in Glyco-DIBMA Native Nanodiscs (C7 symmetry)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 368753 Reported Resolution (Å) 2.99 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C7
Map-Model Fitting and Refinement Id 1 (7OO6) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 127.8 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) 800 Maximum Defocus (nm) 1700 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 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v3.3.250 IMAGE ACQUISITION SerialEM 4.1 CTF CORRECTION cryoSPARC v3.3.250 MODEL FITTING Coot v.0.9.8.92 MODEL REFINEMENT PHENIX v.1.21.2-5419 INITIAL EULER ASSIGNMENT cryoSPARC v3.3.250 FINAL EULER ASSIGNMENT cryoSPARC v3.3.250 CLASSIFICATION cryoSPARC v3.3.250 RECONSTRUCTION cryoSPARC v3.3.250
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3380588