4ADV | pdb_00004adv

Structure of the E. coli methyltransferase KsgA bound to the E. coli 30S ribosomal subunit

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2AVY
experimental model	PDB	1QYR

Sample
E. COLI METHYLTRANSFERASE KSGA BOUND TO THE E. COLI 30S RIBOSOMAL SUBUNIT

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	HOMEMADE PLUNGER
Cryogen Name	ETHANE
Sample Vitrification Details	VITRIFICATION 1 -- CRYOGEN- ETHANE, INSTRUMENT- PLUNGER,

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	23343
Reported Resolution (Å)	13.5
Resolution Method
Other Details	30S RIBOSOMAL SUBUNIT HEAD AND BODY WERE FITTED SEPARATELY AS RIGID BODIES. SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2017. (DEPOSITION ID: 10519).
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (2AVY, 1QYR)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target	Cross-correlation coefficient
Overall B Value
Fitting Procedure
Details	METHOD--RIGID BODY REFINEMENT PROTOCOL--XRAY

Data Acquisition
Detector Type	GATAN ULTRASCAN 4000 (4k x 4k)
Electron Dose (electrons/Å**2)	20

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI TECNAI 20
Minimum Defocus (nm)	2000
Maximum Defocus (nm)	4000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	62000
Calibrated Magnification	82000
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	200
Imaging Details	SEMI-AUTOMATIC DATA ACQUISITION WITH SERIAL EM SCRIPT

EM Software
Task	Software Package	Version
MODEL FITTING	UCSF Chimera
RECONSTRUCTION	IMAGIC	5
RECONSTRUCTION	SPIDER

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
	PER IMAGE, CTFFIND3