☰ Navigation Tabs
Asymmetric structure of the capsid-portal complex of Lactococcus phage Nocturne116
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 2.8337 f_angle_d 0.3253 f_chiral_restr 0.0381 f_plane_restr 0.0023 f_bond_d 0.0015
Sample Lactococcus phage Nocturne116 Sample Components Capsid Portal complex
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 20447 Reported Resolution (Å) 3.52 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 1200 Maximum Defocus (nm) 3000 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 165000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 4.0.1 IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4.1.14 MODEL FITTING Coot 0.9.8 INITIAL EULER ASSIGNMENT RELION 4.0.1 FINAL EULER ASSIGNMENT RELION 4.0.1 RECONSTRUCTION RELION 5.0.0 MODEL REFINEMENT Coot 0.9.8 MODEL REFINEMENT PHENIX 1.20.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION