8TKB

tRNA 2-phosphotransferase (Tpt1) from Pyrococcus horikoshii in complex with 5'-AMP

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	2023-03-03
Detector	DECTRIS EIGER2 X 16M
Wavelength(s)	0.9792
Spacegroup name	P 21 21 21
Unit cell lengths	38.937, 43.665, 122.861
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	41.140 - 1.710
R-factor	0.1859
Rwork	0.185
R-free	0.20920
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	8tfi
RMSD bond length	0.012
RMSD bond angle	1.219
Data reduction software	XDS
Data scaling software	XDS
Phasing software	PHENIX
Refinement software	PHENIX (1.20.1_4487)

Data quality characteristics

	Overall	Outer shell
Low resolution limit [Å]	43.670	1.740
High resolution limit [Å]	1.710	1.710
Rmerge	0.054	1.114
Rpim	0.016	0.343
Number of reflections	23319	1195
<I/σ(I)>	23.5	2.1
Completeness [%]	99.4	99.5
Redundancy	11.5	11.3
CC(1/2)	1.000	0.837

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, SITTING DROP		295	0.1 M Tris-Bicine (pH 8.3), 0.1 M amino acid additives mixture (0.02 M each of DL-glutamic acid monohydrate, DL-alanine, glycine, DL-lysine monohydrate and DL-serine), 16-29.6% ethylene glycol, and 8-14.8% PEG-8000