5VQQ
Crystal Structure of HIV-1 Reverse Transcriptase in Complex with N-(6-cyano-3-(2-(2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy)phenoxy)-4-methylnaphthalen-1-yl)-2-fluoro-N-methylacetamide (JLJ683), a Non-nucleoside Inhibitor
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 24-ID-E |
Synchrotron site | APS |
Beamline | 24-ID-E |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2016-12-13 |
Detector | ADSC QUANTUM 315 |
Wavelength(s) | 0.979 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 162.400, 73.500, 108.260 |
Unit cell angles | 90.00, 99.27, 90.00 |
Refinement procedure
Resolution | 43.216 - 2.550 |
R-factor | 0.2264 |
Rwork | 0.225 |
R-free | 0.25490 |
Structure solution method | FOURIER SYNTHESIS |
Starting model (for MR) | 5ter |
RMSD bond length | 0.002 |
RMSD bond angle | 0.494 |
Data reduction software | XDS (Nov 1, 2016) |
Data scaling software | XSCALE (Nov 1, 2016) |
Phasing software | PHENIX (1.10.1_2155) |
Refinement software | PHENIX (1.10.1_2155) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 43.216 | 43.216 | 2.620 |
High resolution limit [Å] | 2.550 | 11.400 | 2.550 |
Rmerge | 0.043 | 0.022 | 0.574 |
Rmeas | 0.050 | 0.026 | 0.670 |
Number of reflections | 41104 | 468 | 3017 |
<I/σ(I)> | 19.11 | 44.55 | 2.39 |
Completeness [%] | 99.5 | 92.7 | 99.7 |
Redundancy | 3.74 | 3.34 | 3.722 |
CC(1/2) | 0.999 | 0.999 | 0.778 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 6.5 | 277 | 50 mM imidazole pH 6.5, 20% PEG 8,000, 100 mM ammonium sulfate, 15 mM magnesium sulfate, and 5 mM spermine |