7JI5
Self-assembly of a 3D DNA crystal lattice (4x6 scramble junction version) containing the J36 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 | 112.705, 112.705, 50.618 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 24.499 - 2.702 |
R-factor | 0.2311 |
Rwork | 0.229 |
R-free | 0.26770 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6xna |
RMSD bond length | 0.006 |
RMSD bond angle | 0.781 |
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 | 2.750 |
High resolution limit [Å] | 2.700 | 7.320 | 2.700 |
Rmerge | 0.076 | 0.077 | 1.022 |
Rmeas | 0.080 | 0.081 | 1.084 |
Rpim | 0.025 | 0.025 | 0.354 |
Number of reflections | 6544 | 323 | 328 |
<I/σ(I)> | 9.8 | ||
Completeness [%] | 99.7 | 99.7 | 98.8 |
Redundancy | 10.2 | 10.5 | 8.8 |
CC(1/2) | 0.924 | 0.981 | 0.746 |
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 18 mM MgCl2, 2.25 mM spermine, 0.9 mM CoH18N6, and 4.5% MPD was added to the reservoir with 2 uL added to the drop containing 4 uL of DNA stock |