Experiment: 26FE

Cryo-EM structure of the A17(1-16) peptide-bound N-terminal 17 residue truncated D13 trimer from vaccinia virus

ELECTRON MICROSCOPY

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	3.503
f_angle_d	0.418
f_chiral_restr	0.046
f_plane_restr	0.003
f_bond_d	0.002

Sample
A17(1-16) peptide-bound N-terminal 17 residue truncated D13 trimer from vaccinia virus

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	Wait time: 0sec Blot force: 0 Blot time: 5sec

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	123726
Reported Resolution (Å)	3.04
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT

Map-Model Fitting and Refinement
Id	1
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target	Map-to-model correlation
Overall B Value
Fitting Procedure
Details	Model building was proceeded by manually fitting the cryo-EM structure of D13 (PDB ID 7VFD) into our cryo-EM map using UCSF Chimera. The model was su ...	Model building was proceeded by manually fitting the cryo-EM structure of D13 (PDB ID 7VFD) into our cryo-EM map using UCSF Chimera. The model was subsequently inspected and adjusted in Coot. Coordinate refinements were performed using the real-space refinement routine in the Phenix software suite.

Data Acquisition
Detector Type	GATAN K3 BIOCONTINUUM (6k x 4k)
Electron Dose (electrons/Å**2)	53.12

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	1200
Maximum Defocus (nm)	2200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2.7
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	130000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	cryoSPARC	4.5.3
CTF CORRECTION	cryoSPARC	4.5.3
MODEL FITTING	UCSF Chimera
MODEL FITTING	Coot	0.9.8.92
MODEL REFINEMENT	PHENIX	1.20.1_4487
INITIAL EULER ASSIGNMENT	cryoSPARC	4.5.3
FINAL EULER ASSIGNMENT	cryoSPARC	4.5.3
CLASSIFICATION	cryoSPARC	4.5.3
RECONSTRUCTION	cryoSPARC	4.5.3

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
NONE