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Crystal structure of PBCV-1 VP54 fitted into a cryo-EM reconstruction of the virophage Sputnik
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M3Y
Sample major capsid protein of sputnik
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument HOMEMADE PLUNGER Cryogen Name ETHANE Sample Vitrification Details flash-frozen on holey grids in liquid ethane
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 6780 Reported Resolution (Å) 10.6 Resolution Method Other Details EMAN Refinement Type Symmetry Type POINT Point Symmetry I
Map-Model Fitting and Refinement Id 1 (1M3Y) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Sumf Overall B Value Fitting Procedure Details REFINEMENT PROTOCOL--rigid body
Data Acquisition Detector Type GENERIC FILM Electron Dose (electrons/Å**2) 20
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) 70 Microscope Model FEI/PHILIPS CM200FEG Minimum Defocus (nm) 767 Maximum Defocus (nm) 3582 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 38000 Calibrated Magnification 39190 Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version MODEL FITTING EMfit RECONSTRUCTION EMAN
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details CTF parameters were calculated for particles in each micrograph.