6D3P
Crystal structure of an exoribonuclease-resistant RNA from Sweet clover necrotic mosaic virus (SCNMV)
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | ALS BEAMLINE 4.2.2 |
Synchrotron site | ALS |
Beamline | 4.2.2 |
Temperature [K] | 100 |
Detector technology | CMOS |
Collection date | 2016-11-23 |
Detector | RDI CMOS_8M |
Wavelength(s) | 1.0972 |
Spacegroup name | P 61 2 2 |
Unit cell lengths | 83.400, 83.400, 94.210 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 39.455 - 2.900 |
R-factor | 0.2434 |
Rwork | 0.241 |
R-free | 0.25870 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | AutoSol |
Refinement software | PHENIX (1.13_2998) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 39.455 | 39.455 | 1.900 |
High resolution limit [Å] | 1.850 | 8.280 | 1.850 |
Rmerge | 0.592 | 0.054 | |
Rmeas | 0.612 | 0.054 | |
Total number of observations | 713044 | ||
Number of reflections | 27657 | 357 | 542 |
<I/σ(I)> | 7.14 | 81.55 | |
Completeness [%] | 88.6 | 98.3 | 23.7 |
Redundancy | 25.782 | 43.667 | 1.696 |
CC(1/2) | 0.884 | 1.000 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 6.5 | 293 | drop: 1 uL 5 mg/mL RNA in 30 mM HEPES pH 7.5, 20 mM MgCl2, 100 mM KCl + 1 uL 50 mM sodium cacodylate trihydrate (pH 6.5), 0.2 M potassium chloride, 0.1 M magnesium acetate tetrahydrate, 14% w/v PEG 8000. Crystals were buffer-exchanged into freezing solution (mother liquor containing 20% ethylene glycol and 20 mM Iridium (III) hexammine) and flash-frozen in liquid nitrogen |