1R3Z
Crystal structures of d(Gm5CGm5CGCGC) and d(GCGCGm5CGm5C): Effects of methylation on alternating DNA octamers
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | ROTATING ANODE |
| Source details | RIGAKU RU200 |
| Temperature [K] | 298 |
| Detector technology | IMAGE PLATE |
| Detector | RIGAKU RAXIS IIC |
| Spacegroup name | P 43 21 2 |
| Unit cell lengths | 42.970, 42.970, 24.930 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 10.000 - 1.700 |
| R-factor | 0.193 |
| Rwork | 0.170 |
| R-free | 0.21700 * |
| Structure solution method | Molecular Placement |
| RMSD bond length | 0.020 * |
| RMSD bond angle | 2.500 * |
| Data scaling software | SCALEPACK |
| Phasing software | CNS |
| Refinement software | CNS |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 10.000 | |
| High resolution limit [Å] | 1.700 | 1.700 |
| Rmerge | 0.081 * | 0.200 * |
| Number of reflections | 2711 * | |
| Completeness [%] | 90.0 * | 80.5 * |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 6 | 298 | cacodylate, magnesium chloride, spermine tetrachloride, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
Crystallization Reagents
| ID | crystal ID | solution ID | reagent name | concentration | details |
| 1 | 1 | 1 | cacodylate | ||
| 2 | 1 | 1 | magnesium chloride | ||
| 3 | 1 | 1 | spermine tetrachloride | ||
| 4 | 1 | 1 | H2O | ||
| 5 | 1 | 2 | cacodylate | ||
| 6 | 1 | 2 | magnesium chloride | ||
| 7 | 1 | 2 | spermine tetrachloride | ||
| 8 | 1 | 2 | H2O |
Crystallization Reagents in Literatures
| ID | crystal ID | solution | reagent name | concentration (unit) | details |
| 1 | 1 | drop | DNA | 1 (mM) | |
| 2 | 1 | drop | sodium cacodylate | 25 (mM) | pH6.0 |
| 3 | 1 | drop | 1 (mM) | ||
| 4 | 1 | drop | spermine tetrachloride | 0.5 (mM) | |
| 5 | 1 | reservoir | MPD | 40 (%) |
