6NVR

Crystal structure of TrmD, a tRNA-(N1G37) methyltransferase, from Mycobacterium abscessus in Apo form

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	DIAMOND BEAMLINE I04
Synchrotron site	Diamond
Beamline	I04
Temperature [K]	100
Detector technology	PIXEL
Collection date	2015-08-06
Detector	DECTRIS PILATUS 6M-F
Wavelength(s)	0.9790
Spacegroup name	P 21 21 21
Unit cell lengths	73.724, 79.128, 86.235
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	58.303 - 1.562
R-factor	0.1813
Rwork	0.181
R-free	0.19430
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	3quv
RMSD bond length	0.006
RMSD bond angle	1.027
Data reduction software	XDS
Data scaling software	Aimless (0.5.12)
Phasing software	PHASER (2.5.7)
Refinement software	PHENIX (1.9_1692)

Data quality characteristics

	Overall	Inner shell	Outer shell
Low resolution limit [Å]	86.230	86.230	1.650
High resolution limit [Å]	1.560	4.940	1.560
Rmerge	0.049	0.045	0.729
Rmeas	0.053	0.048	0.784
Rpim	0.019	0.018	0.285
Number of reflections	72241	2493	10456
<I/σ(I)>	20.5
Completeness [%]	100.0	99.9	100
Redundancy	7.7	7.1	7.4
CC(1/2)	0.999	0.998	0.835

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, SITTING DROP		292	0.08 mM Sodium cacodylate pH 6.5 - 7.0, 1-2 M Ammonium sulphate