☰ Navigation Tabs
Cryo-EM structure of the PSI-LHCI-Lhcp supercomplex from Ostreococcus tauri
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ZJI experimental model PDB 7D0J
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 18.385 f_angle_d 1.659 f_chiral_restr 0.083 f_bond_d 0.012 f_plane_restr 0.011
Sample photosystem I-light-harvesting complex I-prasinophyte-specific Lhc protein (PSI-LHCI-Lhcp) supercomplex
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name NITROGEN Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 80366 Reported Resolution (Å) 2.94 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 5ZJI, 7D0J, 7D0J) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Correlation coefficient Overall B Value 110.967 Fitting Procedure Details Initial local fitting was done using Chimera and then Wincoot was usd for flexible fitting
Data Acquisition Detector Type GATAN K2 BASE (4k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN Minimum Defocus (nm) 1800 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 cryoSPARC 3.3.1 CTF CORRECTION cryoSPARC 3.3.1 CTF CORRECTION MotionCorr2 1.3 MODEL FITTING UCSF Chimera 1.16 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT PHENIX 1.19.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 5288217 Template picker was used to automatically select particle images