8VTX

Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution

This is a non-PDB format compatible entry.

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	APS BEAMLINE 24-ID-C
Synchrotron site	APS
Beamline	24-ID-C
Temperature [K]	100
Detector technology	PIXEL
Collection date	2020-10-24
Detector	DECTRIS EIGER2 X 16M
Wavelength(s)	0.97911
Spacegroup name	P 21 21 21
Unit cell lengths	209.540, 448.510, 620.520
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	147.200 - 2.400
R-factor	0.2216
Rwork	0.220
R-free	0.25950
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	6xhv
RMSD bond length	0.005
RMSD bond angle	0.916
Data reduction software	XDS
Data scaling software	XSCALE
Phasing software	PHASER
Refinement software	PHENIX (1.8.2)

Data quality characteristics

	Overall	Inner shell	Outer shell
Low resolution limit [Å]	147.200	147.200	2.460
High resolution limit [Å]	2.400	10.730	2.400
Rmerge	0.170	0.060	1.672
Rmeas	0.187	0.067	1.830
Total number of observations	13389343
Number of reflections	2227511	25556	163896
<I/σ(I)>	8.15	24.54	1.04
Completeness [%]	99.3	96.9	99.1
Redundancy	6.011	6.268	5.916
CC(1/2)	0.990	0.992	0.201

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION	7.6	292	0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME