☰ Navigation Tabs
Cryo-EM structure (model_2a) of the RC-dLH complex from Gemmatimonas phototrophica at 2.5 A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LGH experimental model PDB 5Y5S experimental model PDB 6ET5
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.6275 f_angle_d 1.0692 f_chiral_restr 0.0464 f_plane_restr 0.0108 f_bond_d 0.0042
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument HOMEMADE PLUNGER Cryogen Name ETHANE Sample Vitrification Details Talmon type
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 103156 Reported Resolution (Å) 2.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (1LGH, 5Y5S, 6ET5) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 30 Fitting Procedure Details ISOLDE incorporated in ChimeraX was used.
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 24.8
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) -800 Maximum Defocus (nm) -2400 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 120000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version MODEL FITTING Coot MODEL FITTING UCSF Chimera CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1 CTF CORRECTION CTFFIND 4 INITIAL EULER ASSIGNMENT EMAN2 FINAL EULER ASSIGNMENT EMAN2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1517482