ELECTRON MICROSCOPY Experimental Data



EM Sample
Sample Vitrification Details Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III)
Sample Aggregation State PARTICLE
Sample Reconstruction Method SINGLE PARTICLE
Name of Sample Rat TRPV1 in complex with DkTx and resiniferatoxin
EM Data Acquisition
Date of Experiment 2013-01-01
Temperature (Kelvin) --
Microscope Model FEI POLARA 300
Detector Type GATAN K2 SUMMIT (4k x 4k)
Minimum Defocus (nm) 1500.0
Maximum Defocus (nm) 3000.0
Minimum Tilt Angle (degrees) --
Maximum Tilt Angle (degrees) --
Nominal CS 2.0
Imaging Mode BRIGHT FIELD
Electron Dose (electrons per Å**-2) 21.0
Illumination Mode FLOOD BEAM
Nominal Magnification 31000
Calibrated Magnification 31000
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details Gatan K2 Summit operated in super-resolution counting mode, image recorded with dose fractionation method.
3D Reconstruction
Software Package(s) Relion
Reconstruction Method(s) --
EM Image Reconstruction Statistics
Number of Particles 36158
Other Details The entire ankyrin structure was fitted as a single rigid body. As a result, the first two ankyrin repeats (UNP residues 111-199) are included but are not well defined by the experimental density. Interatomic clashes between the ankyrin repeats and the C-terminal beta sheet are the result of poor geometry due to relatively poor experimental density in these regions. Resolution and averaging of DkTx density was insufficient to provide side chain geometry. The DkTx model was generated as a poly-ALA model based on hanatoxin (PDB entry 1D1H) and docked into the DkTx density with slight modification. (Single particle details: 3D classification, refinement, and reconstruction were performed using RELION) (Single particle--Applied symmetry: C4)
Effective Resolution 3.8
EM Map-Model Fitting and Refinement
Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Fitting Software
REAL AB INITIO MODEL -- -- -- --