8TFY
tRNA 2'-phosphotransferase (Tpt1) from Pyrococcus horikoshii in complex with NADP
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | NSLS-II BEAMLINE 19-ID |
Synchrotron site | NSLS-II |
Beamline | 19-ID |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2023-06-16 |
Detector | DECTRIS EIGER2 XE 9M |
Wavelength(s) | 0.9795 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 38.671, 44.531, 124.808 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 29.200 - 1.540 |
R-factor | 0.172 |
Rwork | 0.170 |
R-free | 0.19300 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 8tfi |
RMSD bond length | 0.008 |
RMSD bond angle | 0.968 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | PHENIX |
Refinement software | PHENIX (1.20.1_4487) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 50.000 | 1.570 |
High resolution limit [Å] | 1.540 | 1.540 |
Rmerge | 0.073 | 1.005 |
Rpim | 0.024 | 0.398 |
Number of reflections | 33140 | 1611 |
<I/σ(I)> | 42.5 | |
Completeness [%] | 100.0 | 99.9 |
Redundancy | 9.3 | 6.4 |
CC(1/2) | 0.997 | 0.807 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 295 | 0.1-0.3 M Tris-Bicine (pH 8.3 or 8.5), 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 |