6SVS
Crystal Structure of U:A-U-rich RNA triple helix with 11 consecutive base triples
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 22-ID |
Synchrotron site | APS |
Beamline | 22-ID |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2018-10-12 |
Detector | DECTRIS EIGER X 16M |
Wavelength(s) | 1.0000 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 54.716, 78.114, 84.018 |
Unit cell angles | 90.00, 104.20, 90.00 |
Refinement procedure
Resolution | 40.700 - 2.500 |
R-factor | 0.1689 |
Rwork | 0.167 |
R-free | 0.21340 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4plx |
Data reduction software | XDS |
Data scaling software | STARANISO |
Phasing software | PHASER |
Refinement software | PHENIX (1.15.2_3472) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 40.700 | 40.700 | 2.700 |
High resolution limit [Å] | 2.500 | 8.340 | 2.500 |
Rmerge | 0.039 | 0.025 | 1.470 |
Rmeas | 0.045 | 0.029 | 1.660 |
Number of reflections | 13040 | 648 | 664 |
<I/σ(I)> | 17.9 | 40.9 | 1.1 |
Completeness [%] | 54.4 | 95.7 | 13 |
Redundancy | 3.9 | ||
CC(1/2) | 1.000 | 1.000 | 0.400 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 292 | The crystallization drop included 1.5 ul of MALAT1_th11 RNA and 1 ul reservoir solution containing 50 mM sodium cacodylate pH 6.0-6.3, 200 mM calcium acetate, and 2.5 M sodium chloride. Crystals were cryoprotected by stepwise addition of crystallization solution supplemented with glycerol until the final concentration of 20% glycerol was reached. |