1JB8
The Crystal Structure of an RNA/DNA Hybrid Reveals Novel Intermolecular Intercalation
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | ROTATING ANODE |
| Source details | ENRAF-NONIUS |
| Temperature [K] | 93 |
| Detector technology | IMAGE PLATE |
| Collection date | 2000-08-15 |
| Detector | RIGAKU RAXIS IV |
| Wavelength(s) | 1.5418 |
| Spacegroup name | I 2 2 2 |
| Unit cell lengths | 45.234, 46.780, 56.560 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 10.000 - 2.380 |
| Rwork | 0.223 |
| R-free | 0.25100 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | P2(1)2(1)2(1) structure of the same sequence of RNA/DNA hybrid |
| RMSD bond length | 0.004 |
| RMSD bond angle | 0.820 |
| Data reduction software | DENZO |
| Phasing software | EPMR |
| Refinement software | CNS |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 10.000 | 2.380 |
| High resolution limit [Å] | 2.380 | 2.300 |
| Rmerge | 0.053 | 0.780 |
| Number of reflections | 2814 | |
| Completeness [%] | 98.9 | 96.9 |
| Redundancy | 6.5 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | Vapor diffusion, sitting drop * | 5.8 * | 277 | MPD, magnesium acetate, spermidine, Na cacodylate, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
Crystallization Reagents
| ID | crystal ID | solution ID | reagent name | concentration | details |
| 1 | 1 | 1 | MPD | ||
| 2 | 1 | 1 | magnesium acetate | ||
| 3 | 1 | 1 | spermidine | ||
| 4 | 1 | 1 | sodium cacodylate |
Crystallization Reagents in Literatures
| ID | crystal ID | solution | reagent name | concentration (unit) | details |
| 1 | 1 | reservoir | 5.14 (mM) |
