☰ Navigation Tabs
Cryo-EM structure of glutamate dehydrogenase at 1.8 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NR7
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 8.742 f_angle_d 1.203 f_chiral_restr 0.07 f_bond_d 0.009 f_plane_restr 0.008
Sample Glutamate dehydrogenase
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Plunged into liquiq ethane (FEI VITROBOT MARK IV)
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 21818 Reported Resolution (Å) 1.8 Resolution Method FSC 0.143 CUT-OFF Other Details The primary map in this entry corresponds to theuncorrected reconstruction. A version sharpened using a B-factor of -90 is provided as additional volu ... The primary map in this entry corresponds to theuncorrected reconstruction. A version sharpened using a B-factor of -90 is provided as additional volume data. Refinement Type Symmetry Type POINT Point Symmetry D3
Map-Model Fitting and Refinement Id 1 (1NR7) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 QUANTUM (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2100 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 215000 Calibrated Magnification 78000 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version CTF CORRECTION FREALIGN 9.10 MODEL FITTING UCSF Chimera MODEL REFINEMENT PHENIX MODEL REFINEMENT Coot INITIAL EULER ASSIGNMENT FREALIGN 9.10 FINAL EULER ASSIGNMENT FREALIGN 9.10 RECONSTRUCTION FREALIGN 9.10
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 45388