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 (%) |