280D
THE STRUCTURE OF AN RNA DODECAMER SHOWS HOW TANDEM U-U BASE PAIRS INCREASE THE RANGE OF STABLE RNA STRUCTURES AND THE DIVERSITY OF RECOGNITION SITES
Experimental procedure
| Source type | ROTATING ANODE |
| Source details | RIGAKU RU200 |
| Temperature [K] | 100 |
| Detector technology | AREA DETECTOR |
| Collection date | 1995-03-22 |
| Detector | SIEMENS-NICOLET X100 |
| Spacegroup name | P 1 |
| Unit cell lengths | 29.440, 28.910, 46.460 |
| Unit cell angles | 98.87, 72.95, 96.16 |
Refinement procedure
| Resolution | 8.000 - 2.400 |
| R-factor | 0.191 |
| Rwork | 0.191 |
| R-free | 0.24000 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | HELIX 1 OF THE RNA DODECAMER CONTAINING THE E. COLI SHINE DALGARNO SEQUENCE (NDB ID ARL062) WITH THE SEQUENCE MUTATED TO R(GGCGCUUGCGUC). |
| RMSD bond length | 0.010 |
| RMSD bond angle | 8.000 * |
| Data reduction software | XDS |
| Data scaling software | XSCALE |
| Phasing software | AMoRE |
| Refinement software | X-PLOR |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 15.000 | 2.600 |
| High resolution limit [Å] | 2.400 | 2.400 |
| Rmerge | 0.076 | 0.182 |
| Total number of observations | 26632 * | |
| Number of reflections | 5429 | |
| <I/σ(I)> | 44.6 | 8.05 |
| Completeness [%] | 95.4 | 95.5 |
| Redundancy | 4.9 | 2.4 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION | 7 | pH 7.00, VAPOR DIFFUSION |
Crystallization Reagents
| ID | crystal ID | solution ID | reagent name | concentration | details |
| 1 | 1 | 1 | WATER | ||
| 2 | 1 | 1 | MPD | ||
| 3 | 1 | 1 | MGCL2 | ||
| 4 | 1 | 1 | NA CACODYLATE | ||
| 5 | 1 | 1 | NH4 ACETATE | ||
| 6 | 1 | 2 | WATER | ||
| 7 | 1 | 2 | MPD | ||
| 8 | 1 | 2 | MGCL2 | ||
| 9 | 1 | 2 | NA CACODYLATE |
Crystallization Reagents in Literatures
| ID | crystal ID | solution | reagent name | concentration (unit) | details |
| 1 | 1 | drop | RNA | 0.63 (mg/ml) | |
| 2 | 1 | drop | 12.5 (mM) | ||
| 3 | 1 | drop | sodium cacodylate | 25 (mM) | |
| 4 | 1 | drop | MPD | 2.5 (%) | or 5 % |
| 5 | 1 | drop | ammonium acetate | 100-300 (mM) | |
| 6 | 1 | reservoir | MPD | 5 (%) | ot 10 % |
| 7 | 1 | reservoir | sodium cacodylate | 50 (mM) |
