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Cryo-EM structure of yeast EMC:Spf1 insertase:dislocase complex in E1-ATP conformation in digitonin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7KRA in silico model AlphaFold AF-P39986-F1-v4
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.587 f_angle_d 0.614 f_chiral_restr 0.052 f_plane_restr 0.006 f_bond_d 0.003
Sample EMC:Spf1 insertase:dislocase complex bound to ATPyS Sample Components ER membrane protein complex (EMC) Spf1
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 33661 Reported Resolution (Å) 3.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (7kra) Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 62.62
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 700 Maximum Defocus (nm) 2200 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 5 MODEL REFINEMENT PHENIX 1.21.1_5286: RECONSTRUCTION RELION 5
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION