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Cryo-EM structure of the unliganded form of NLR family apoptosis inhibitory protein 5 (NAIP5)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5YUD experimental model PDB 6B5B
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 10.6404 f_angle_d 0.8148 f_chiral_restr 0.0502 f_plane_restr 0.0053 f_bond_d 0.0049
Sample pre-liganded form of NAIP5
Specimen Preparation Sample Aggregation State CELL Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 159513 Reported Resolution (Å) 3.3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (5YUD, 6B5B) Refinement Space REAL Refinement Protocol BACKBONE TRACE Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 52
Imaging Experiment 1 Date of Experiment 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 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 IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC MODEL FITTING Coot 0.9.4.1 EL RECONSTRUCTION cryoSPARC MODEL REFINEMENT PHENIX 1.18.2-3874
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION