8FC4

Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and erythromycin at 2.45A 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	2022-04-26
Detector	DECTRIS EIGER2 X 16M
Wavelength(s)	0.97918
Spacegroup name	P 21 21 21
Unit cell lengths	209.460, 449.560, 619.150
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	103.720 - 2.450
R-factor	0.2207
Rwork	0.218
R-free	0.26350
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	6xhx
RMSD bond length	0.004
RMSD bond angle	0.892
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]	103.720	103.720	2.510
High resolution limit [Å]	2.450	10.960	2.450
Rmerge	0.148	0.049	1.569
Rmeas	0.169	0.055	1.803
Total number of observations	8767329
Number of reflections	2082801	23838	151966
<I/σ(I)>	7.51	22.23	0.85
Completeness [%]	98.8	96.1	97.8
Redundancy	4.209	4.511	4.161
CC(1/2)	0.991	0.995	0.134

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