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AP2 bound to heparin in the closed conformation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VGL
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 3.976 f_angle_d 0.537 f_chiral_restr 0.041 f_bond_d 0.004 f_plane_restr 0.004
Sample AP2 complex bound to heparin
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details Blot force -10, 4 second blot, 4 uL sample
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 157670 Reported Resolution (Å) 3.5 Resolution Method FSC 0.143 CUT-OFF Other Details Non-Uniform refinement in cryoSPARC v3.2.0 Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (2VGL) Refinement Space Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details phenix.real_space_refine
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 55
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 500 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 45000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 3.2.0 IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC 3.2.0 MODEL FITTING Coot 0.8.9.1 MODEL FITTING UCSF Chimera 1.14 FINAL EULER ASSIGNMENT cryoSPARC 3.2.0 RECONSTRUCTION cryoSPARC 3.2.0 MODEL REFINEMENT PHENIX 1.19.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 805304