5DSA
Crystal structure of Holliday junctions stabilized by 5-methylcytosine in GCC junction core
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | ROTATING ANODE |
Source details | RIGAKU MICROMAX-003 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2014-10-08 |
Detector | DECTRIS PILATUS 200K |
Wavelength(s) | 1.54 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 65.968, 24.542, 37.992 |
Unit cell angles | 90.00, 111.98, 90.00 |
Refinement procedure
Resolution | 30.587 - 1.690 |
R-factor | 0.2495 |
Rwork | 0.248 |
R-free | 0.27750 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 1p4y |
RMSD bond length | 0.009 |
RMSD bond angle | 1.187 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | PHENIX |
Refinement software | PHENIX |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 50.000 | 1.710 |
High resolution limit [Å] | 1.680 | 4.560 | 1.680 |
Rmerge | 0.068 | 0.060 | 0.245 |
Rmeas | 0.072 | 0.063 | 0.302 |
Rpim | 0.023 | 0.020 | 0.173 |
Total number of observations | 36747 | ||
Number of reflections | 6159 | ||
<I/σ(I)> | 20.7 | ||
Completeness [%] | 91.8 | 99.7 | 23.2 |
Redundancy | 6 | 9.5 | 2.1 |
CC(1/2) | 0.999 | 0.952 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7 | 292 | 0.78 mM DNA, 1.0 mM Spermine, 3.5 mM CaCl2, 25 mM sodium cacodylate |