5IRX

Structure of TRPV1 in complex with DkTx and RTX, determined in lipid nanodisc

ELECTRON MICROSCOPY

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	10.484
f_angle_d	1.147
f_chiral_restr	0.058
f_bond_d	0.013
f_plane_restr	0.006

Sample
TRPV1 ion channel in complex with DkTx and RTX
Sample Components
Transient receptor potential cation channel subfamily V member 1
Tau-theraphotoxin-Hs1a

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK III
Cryogen Name	ETHANE
Sample Vitrification Details	Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	73929
Reported Resolution (Å)	2.95
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C4

Map-Model Fitting and Refinement
Id	1 (3J5Q)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target	correlation coefficient
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	41

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI POLARA 300
Minimum Defocus (nm)	700
Maximum Defocus (nm)	2200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	OTHER
Nominal Magnification	31000
Calibrated Magnification	41132
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details	Grid screening was performed manually.

EM Software
Task	Software Package	Version
PARTICLE SELECTION	SPIDER
IMAGE ACQUISITION	UCSFImage4
CTF CORRECTION	CTFFIND4	4
MODEL FITTING	UCSF Chimera	1.10
INITIAL EULER ASSIGNMENT	RELION	1.3
FINAL EULER ASSIGNMENT	RELION	1.3
CLASSIFICATION	RELION	1.3
RECONSTRUCTION	RELION	1.3
MODEL REFINEMENT	Coot
MODEL REFINEMENT	PHENIX

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION	CTF correction was performed before classification and refinement.	218787	Initial manual particle picking and automatic particle picking were performed using SamViewer and several python scripts based on SPIDER.

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.