1P4Y
Effect of Sequence on the Conformational Geometry of DNA Holliday Junctions
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | ROTATING ANODE |
Source details | RIGAKU RU300 |
Temperature [K] | 103 |
Detector technology | IMAGE PLATE |
Collection date | 2003-01-24 |
Detector | RIGAKU RAXIS IV |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 66.513, 24.179, 37.004 |
Unit cell angles | 90.00, 110.01, 90.00 |
Refinement procedure
Resolution | 20.000 * - 1.700 |
R-factor | 0.229 |
Rwork | 0.229 |
R-free | 0.26000 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | UD0008 |
RMSD bond length | 0.007 |
RMSD bond angle | 1.240 * |
Data reduction software | DENZO |
Data scaling software | SCALEPACK |
Phasing software | EPMR |
Refinement software | CNS (1.0) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 50.000 * | 1.710 |
High resolution limit [Å] | 1.600 * | 1.650 |
Rmerge | 0.049 * | 0.278 * |
Total number of observations | 50581 * | |
Number of reflections | 5137 * | |
<I/σ(I)> | 2.14 | |
Completeness [%] | 78.7 * | 48 * |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | Vapor diffusion * | 7 | 25 * | 0.5mM DNA, 25mM sodium cacodylate, 7.5mM CaCl2, 0.1mM SPERMINE TETRAHYDROCHLORIDE, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K, pH 7.00 |
Crystallization Reagents
ID | crystal ID | solution ID | reagent name | concentration | details |
1 | 1 | 1 | sodium cacodylate | ||
2 | 1 | 1 | CaCl2 | ||
3 | 1 | 1 | SPERMINE TETRAHYDROCHLORIDE | ||
4 | 1 | 1 | H2O | ||
5 | 1 | 2 | sodium cacodylate | ||
6 | 1 | 2 | CaCl2 | ||
7 | 1 | 2 | SPERMINE TETRAHYDROCHLORIDE | ||
8 | 1 | 2 | H2O |
Crystallization Reagents in Literatures
ID | crystal ID | solution | reagent name | concentration (unit) | details |
1 | 1 | drop | DNA | 0.5 (mM) | |
2 | 1 | drop | sodium cacodylate | 25 (mM) | pH7.0 |
3 | 1 | drop | 7.5 (mM) | ||
4 | 1 | drop | spermine tetrahydrochloride | 0.1 (mM) | |
5 | 1 | reservoir | MPD | 28 (%(v/v)) |