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Glutamate dehydrogenase in complex with GTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MW9
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.436 f_angle_d 0.789 f_chiral_restr 0.241 f_bond_d 0.009 f_plane_restr 0.004
Sample Binary complex of bovine glutamate dehydrogenase with GTP Sample Components L-glutamate:NAD(P)+ oxidoreductase (deaminating)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Blot for about 4 seconds before plunging into liquid ethane (FEI VITROBOT MARK IV).
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 39439 Reported Resolution (Å) 3.47 Resolution Method FSC 0.143 CUT-OFF Other Details (Single particle details: The particles were selected using an automatic selection program.) (Single particle--Applied symmetry: D3) Refinement Type Symmetry Type POINT Point Symmetry D3
Map-Model Fitting and Refinement Id 1 (3MW9) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details REFINEMENT PROTOCOL--flexible
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 45
Imaging Experiment 1 Date of Experiment 2014-05-15 Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2500 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 Calibrated Magnification 78426 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details The total exposure time was 15.2 seconds. Intermediate frames were recorded every 0.4 seconds, resulting in a total of 38 frames per image.
EM Software Task Software Package Version CTF CORRECTION CTFFIND 3 MODEL FITTING Coot MODEL FITTING PHENIX MODEL FITTING Rosetta MODEL FITTING UCSF Chimera RECONSTRUCTION EMAN 2 RECONSTRUCTION RELION MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details Each micrograph