1J9H
Crystal Structure of an RNA Duplex with Uridine Bulges
Experimental procedure
| Experimental method | MAD |
| Source type | SYNCHROTRON |
| Source details | APS BEAMLINE 14-BM-D |
| Synchrotron site | APS |
| Beamline | 14-BM-D |
| Temperature [K] | 100 |
| Detector technology | CCD |
| Detector | ADSC QUANTUM 4 |
| Wavelength(s) | 0.92 |
| Spacegroup name | P 41 2 2 |
| Unit cell lengths | 47.180, 47.180, 80.040 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 20.000 - 1.400 |
| R-factor | 0.212 * |
| Rwork | 0.212 |
| R-free | 0.23400 |
| Structure solution method | MAD |
| RMSD bond length | 0.011 * |
| RMSD bond angle | 1.500 * |
| Data scaling software | SCALEPACK |
| Phasing software | MLPHARE |
| Refinement software | CNS (1.0) |
Data quality characteristics
| Overall | |
| Low resolution limit [Å] | 20.000 |
| High resolution limit [Å] | 1.400 |
| Rmerge | 0.083 |
| Number of reflections | 33934 |
| <I/σ(I)> | 22 |
| Completeness [%] | 99.3 |
| Redundancy | 9 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 6 | 293 * | 20mM sodium cacodylate (pH 6.0), 10mM calcium chloride, 100mM sodium chloride, and 10%(v/v) MPD against 50% MPD in the reservoir, VAPOR DIFFUSION, HANGING DROP |
Crystallization Reagents
| ID | crystal ID | solution ID | reagent name | concentration | details |
| 1 | 1 | 1 | sodium cacodylate | ||
| 2 | 1 | 1 | CaCl2 | ||
| 3 | 1 | 1 | NaCl | ||
| 4 | 1 | 1 | MPD | ||
| 5 | 1 | 2 | MPD |
Crystallization Reagents in Literatures
| ID | crystal ID | solution | reagent name | concentration (unit) | details |
| 1 | 1 | drop | 20 (mM) | ||
| 2 | 1 | drop | 10 (mM) | ||
| 3 | 1 | drop | 100 (mM) | ||
| 4 | 1 | drop | 10 (%(v/v)) | ||
| 5 | 1 | reservoir | 50 (%) |
