4Y4O

Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A 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	2014-08-03
Detector	DECTRIS PILATUS 6M-F
Wavelength(s)	0.97900
Spacegroup name	P 21 21 21
Unit cell lengths	209.160, 448.370, 618.120
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	173.220 - 2.300
R-factor	0.2089
Rwork	0.207
R-free	0.24670
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	4v8i
RMSD bond length	0.006
RMSD bond angle	1.151
Data reduction software	XDS
Data scaling software	XSCALE
Phasing software	PHASER
Refinement software	PHENIX ((phenix.refine: 1.8.2_1309))

Data quality characteristics

	Overall	Inner shell	Outer shell
Low resolution limit [Å]	309.060		2.360
High resolution limit [Å]	2.300	10.290	2.300
Rmerge	0.151	0.052	1.866
Rmeas	0.166	0.058	2.088
Total number of observations	13831277
Number of reflections	2469747	28726	151900
<I/σ(I)>	8.5	31.28	0.85
Completeness [%]	97.6	96.6	81.4
Redundancy	5.6

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