4A2I

Cryo-electron Microscopy Structure of the 30S Subunit in Complex with the YjeQ Biogenesis Factor

ELECTRON MICROSCOPY

Sample
ESCHERICHIA COLI 30S RIBOSOMAL SUBUNIT WITH YJEQ PROTEIN BOUND IN THE PRESENCE OF GMP-PNP

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK III
Cryogen Name	ETHANE
Sample Vitrification Details	BLOT FOR 7 SECONDS IN FEI VITROBOT III

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	16228
Reported Resolution (Å)	16.5
Resolution Method
Other Details	THE COORDINATES IN THIS ENTRY WERE GENERATED BY MANUAL DOCKING OF THE STRUCTURE OF THE ESCHERICHIA COLI 30S RIBOSOMAL SUBUNIT (2AVY) AND SALMONELLA TY ...	THE COORDINATES IN THIS ENTRY WERE GENERATED BY MANUAL DOCKING OF THE STRUCTURE OF THE ESCHERICHIA COLI 30S RIBOSOMAL SUBUNIT (2AVY) AND SALMONELLA TYPHYMURIUM (2RCN) INTO THE DENSITY MAP OF THE ESCHERICHIA COLI 30S_YJEQ COMPLEX GENERATED BY CRYO-ELECTRON MICROSCOPY. THE YEJQ PROTEIN WAS FITTED AS THREE SEPARATE DOMAINS: THE OB-FOLD, THE GTPASE DOMAIN, AND THE ZINC-FINGER DOMAIN. THE PROTEIN DATA BANK CONVENTIONS REQUIRE TO ENTER INFORMATION ABOUT THE UNIT CELL, CRYSTAL DATA AND COORDINATE SYSTEM. THESE INFORMATION IS MEANINGLESS IN THIS ENTRY. SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-1895.
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (2AVY, 2RCN)
Refinement Space	REAL
Refinement Protocol	OTHER
Refinement Target	Cross-correlation coefficient
Overall B Value
Fitting Procedure
Details	METHOD--MANUAL REFINEMENT PROTOCOL--X-RAY

Data Acquisition
Detector Type	KODAK SO-163 FILM
Electron Dose (electrons/Å**2)	15

Imaging Experiment	1
Date of Experiment	2010-05-12
Temperature (Kelvin)	100
Microscope Model	JEOL 2010F
Minimum Defocus (nm)	650
Maximum Defocus (nm)	3900
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	1
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	50000
Calibrated Magnification	50000
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	200
Imaging Details

EM Software
Task	Software Package	Version
MODEL FITTING	UCSF Chimera
RECONSTRUCTION	Xmipp

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
	EACH MICROGRAPH

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.