7KTX

Cryo-EM structure of Saccharomyces cerevisiae ER membrane protein complex bound to a Fab in DDM detergent

ELECTRON MICROSCOPY

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	18.0758
f_angle_d	0.9884
f_chiral_restr	0.0552
f_plane_restr	0.0069
f_bond_d	0.0057

Sample
S. cerevisiae endoplasmic reticulum membrane protein complex (EMC) bound to Fab in DDM detergent
Sample Components
endoplasmic reticulum membrane protein complex
Fab DH4

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK III
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	83599
Reported Resolution (Å)	4.3
Resolution Method	FSC 0.143 CUT-OFF
Other Details	These two datasets were processed independently initially. Upon selecting the best subset of data and then re-extracted and scaled to the same pixel ...	These two datasets were processed independently initially. Upon selecting the best subset of data and then re-extracted and scaled to the same pixel size and combined to get to the final 4.3 A resolution maps and model.
Refinement Type
Symmetry Type	POINT
Number of Particles	170186
Reported Resolution (Å)	4.3
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT

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

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	56.8	58.3

Imaging Experiment	1	2
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI POLARA 300	FEI TITAN KRIOS
Minimum Defocus (nm)
Maximum Defocus (nm)
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD	BRIGHT FIELD
Specimen Holder Model		FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN	FIELD EMISSION GUN
Acceleration Voltage (kV)	300	300
Imaging Details	Dataset 1 collected on FEI Polara at UCSF on August 22nd, 2016.	Dataset 2 collected on FEI Titan Krios at Janelia Research Campus on October 20th, 2016.

EM Software
Task	Software Package	Version
IMAGE ACQUISITION	Leginon
IMAGE ACQUISITION	SerialEM
INITIAL EULER ASSIGNMENT	RELION
INITIAL EULER ASSIGNMENT	RELION
MODEL REFINEMENT	PHENIX	1.18

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

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 R01GM157729.