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CryoEM reconstruction of human IKK1, closed conformation 3
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 3.943 f_angle_d 0.792 f_chiral_restr 0.045 f_bond_d 0.006 f_plane_restr 0.006
Sample Inhibitor of KappaB Kinase 1 dimer
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument HOMEMADE PLUNGER Cryogen Name ETHANE Sample Vitrification Details Sample containing IKK1 dimers in SEC buffer was applied onto freshly plasma-treated (6 seconds, Gatan Solarus plasma cleaner) holey carbon C-flat grid ... Sample containing IKK1 dimers in SEC buffer was applied onto freshly plasma-treated (6 seconds, Gatan Solarus plasma cleaner) holey carbon C-flat grids (Protochips), adsorbed for 30 seconds, and then plunged into liquid ethane using a manual cryo-plunger in an ambient environment of 4 degrees C.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 23505 Reported Resolution (Å) 5.2 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target FSC 0.5 Overall B Value 340 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (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) Maximum Defocus (nm) 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 22500 Calibrated Magnification 38167 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION FindEM IMAGE ACQUISITION Leginon 3.1 CTF CORRECTION CTFFIND MODEL REFINEMENT Rosetta 2015.12.57698 MODEL REFINEMENT PHENIX dev-2499 INITIAL EULER ASSIGNMENT RELION 1.3 FINAL EULER ASSIGNMENT FREALIGN 9.11 CLASSIFICATION FREALIGN 9.11 RECONSTRUCTION FREALIGN 9.11
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION within Relion and Frealign 230242