Experiment: 6YEG

ELECTRON MICROSCOPY - SOLID-STATE NMR

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	8.626
f_angle_d	1.031
f_chiral_restr	0.054
f_bond_d	0.006
f_plane_restr	0.006

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	4D HNhhNH	100 % u-2H13C15N; 100% back-exchange gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
2	3D HChH	100 % isoleucine-(1HD1, 13CD1)-u-15N; 100% back-exchange gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
3	3D HChH	100 % leucine-(1HD, 13CD)proR-valine-(1HG, 13CG)proR-u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
4	2D hCH	100 % isoleucine-(1HD1, 13CD1)-u-15N; 100% back-exchange gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
5	2D hCH	100 % alanine-(1HB, 13CB)-u-15N; 100% back-exchange gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
6	2D hCH	100 % leucine-(1HD, 13CD)proR-valine-(1HG, 13CG)proR-u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
7	2D hCH	100 % threonine-(1HG2, 13CG2)-u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
8	2D hCH	100 % methionine-(1HE, 13CE)-u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
9	2D hCH	100 % alanine-(1HB, 13CB)- isoleucine-(1HD1, 13CD1)-( 1HG2, 13CG2)-leucine-(1HD, 13CD)proR/proS-valine-(1HG, 13CG)proR/proS- u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
10	3D HNhH	100 % isoleucine-(1HD1, 13CD1)-u-15N; 100% back-exchange gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
11	3D HNhH	100 % 50% isoleucine-(1HD1, 13CD1)-u-14N & 50% u-15N; 100% back-exchange gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
15	3D HNhH	100 % alanine-(1HB, 13CB)-u-15N; 100% back-exchange gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
14	3D HNhH	100 % 50% alanine-(1HB, 13CB)-u-14N & 50% u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
13	3D HNhH	100 % leucine-(1HD, 13CD)proR-valine-(1HG, 13CG)proR-u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
12	3D HNhH	100 % 50% leucine-(1HD, 13CD)proR- valine-(1HG, 13CG)proR-u-14N & 50% u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
16	3D HNhH	100 % threonine-(1HG2, 13CG2)-u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
17	3D HNhH	100 % 50% threonine-(1HG2, 13CG2)-u-14N & 50% u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900
18	3D HNhH	100 % methionine-(1HE, 13CE)-u-15N; 100% back-exchanged gp17.1, 20 mM sodium phosphate, 500 mM sodium chloride, 1 mM EDTA	solid	0.5 M	7.4	1 atm	291	Bruker AVANCE 900

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	900

NMR Refinement
Method	Details	Software
na

NMR Ensemble Information
Conformer Selection Criteria	all calculated structures submitted
Conformers Calculated Total Number	1
Conformers Submitted Total Number	1
Representative Model	1 (target function)

Computation: NMR Software
#	Classification	Version	Software Name	Author
3	collection	TopSpin		Bruker Biospin
1	processing	TopSpin		Bruker Biospin
4	data analysis	CcpNmr Analysis		CCPN
2	structure calculation	Inferential Structure Determination (ISD)		Rieping, Nilges, Habeck

Sample
SPP1 tail tube

Specimen Preparation
Sample Aggregation State	HELICAL ARRAY
Vitrification Instrument
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	HELICAL
Number of Particles	5966
Reported Resolution (Å)	4
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	HELICAL
Axial Symmetry	C6
Axial Rise	38.46
Angular Rotation	21.89

Map-Model Fitting and Refinement
Id	1
Refinement Space	REAL
Refinement Protocol	AB INITIO MODEL
Refinement Target
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	FEI FALCON III (4k x 4k)
Electron Dose (electrons/Å**2)	70

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI TECNAI ARCTICA
Minimum Defocus (nm)
Maximum Defocus (nm)
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)	200
Imaging Details

EM Software
Task	Software Package	Version
IMAGE ACQUISITION	EPU	2.3
CTF CORRECTION	Gctf	1.06
RECONSTRUCTION	RELION	2.1
MODEL REFINEMENT	PHENIX	1.11.1

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.