7JSC
Self-assembly of a 3D DNA crystal lattice (4x6 scramble duplex version) containing the J31 immobile Holliday junction with R3 symmetry
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 19-ID |
Synchrotron site | APS |
Beamline | 19-ID |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2018-08-15 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 0.92 |
Spacegroup name | H 3 |
Unit cell lengths | 113.109, 113.109, 50.385 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 35.119 - 2.950 |
R-factor | 0.2575 |
Rwork | 0.256 |
R-free | 0.27800 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5vy6 |
RMSD bond length | 0.005 |
RMSD bond angle | 0.744 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | PHASER |
Refinement software | PHENIX (1.11.1_2575) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 50.000 | 3.000 |
High resolution limit [Å] | 2.950 | 8.000 | 2.950 |
Rmerge | 0.087 | 0.088 | 1.055 |
Rmeas | 0.091 | 0.093 | 1.130 |
Rpim | 0.029 | 0.029 | 0.392 |
Total number of observations | 50184 | ||
Number of reflections | 4983 | 252 | 212 |
<I/σ(I)> | 9 | ||
Completeness [%] | 98.5 | 98.8 | 87.6 |
Redundancy | 10.1 | 10.6 | 7.3 |
CC(1/2) | 0.978 | 0.786 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 298 | 0.5 mL of 0.05 M Cacodylate pH 7.0 with 20 mM MgCl2, 1.0 mM spermine, 1.0 mM CoH18N6, and 15% ethanol was added to the reservoir with 2 uL added to the drop containing 4 uL of DNA stock |