8B14

T5 Receptor Binding Protein pb5 in complex with its E. coli receptor FhuA

ELECTRON MICROSCOPY

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	4.592
f_angle_d	0.516
f_chiral_restr	0.045
f_bond_d	0.005
f_plane_restr	0.003

Sample
Complex between T5 Receptor Binding Protein pb5 and its E. coli receptor FhuA, stabilized with detergent
Sample Components
E. coli receptor FhuA
T5 Receptor Binding Protein pb5

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	3.5 microliters of the FhuA-pb5 complex were deposited on a freshly glow discharged (25 mA, 30 sec) Cu/Rh 400 mesh Quantifoil R 2/1 EM grids and flash ...	3.5 microliters of the FhuA-pb5 complex were deposited on a freshly glow discharged (25 mA, 30 sec) Cu/Rh 400 mesh Quantifoil R 2/1 EM grids and flash-frozen in nitrogen-cooled liquid ethane using a ThermoFisher Mark IV Vitrobot device (100% humidity, 293.15K, 2s blotting time, blot force 1).

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	109350
Reported Resolution (Å)	2.6
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (2GRX)
Refinement Space	REAL
Refinement Protocol	AB INITIO MODEL
Refinement Target
Overall B Value
Fitting Procedure
Details	The pb5 protein model was built de novo in the cryo-electron microscopy map. FhuA was adapted from the FhuA structure solved by X-ray crystallography ...	The pb5 protein model was built de novo in the cryo-electron microscopy map. FhuA was adapted from the FhuA structure solved by X-ray crystallography (PDB 2GRX). The two structures were first refined separately using Coot (version 0.9.2) and Phenix (version 1.18.2-3874) softwares, then together. Structure validation was done using MolProbity.

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	60	60

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI TITAN KRIOS
Minimum Defocus (nm)	1200
Maximum Defocus (nm)	2600
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	130000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details	calibrated pixel size = 1.052

EM Software
Task	Software Package	Version
IMAGE ACQUISITION	EPU
CTF CORRECTION	Gctf
MODEL FITTING	UCSF Chimera
MODEL REFINEMENT	Coot	0.9.2
MODEL REFINEMENT	PHENIX	1.18.2-3874
CLASSIFICATION	RELION	3
RECONSTRUCTION	RELION	3

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		2191586

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.