7JLF
Self-assembly of a 3D DNA crystal lattice (4x6 scramble duplex version) containing the J24 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 | 2019-08-15 |
| Detector | DECTRIS PILATUS3 6M |
| Wavelength(s) | 1 |
| Spacegroup name | H 3 |
| Unit cell lengths | 112.594, 112.594, 51.860 |
| Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
| Resolution | 35.522 - 2.909 |
| R-factor | 0.2253 |
| Rwork | 0.225 |
| R-free | 0.23200 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 5vy6 |
| RMSD bond length | 0.006 |
| RMSD bond angle | 0.825 |
| 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 | 2.950 |
| High resolution limit [Å] | 2.900 | 7.860 | 2.900 |
| Rmerge | 0.159 | 0.136 | 1.443 |
| Rmeas | 0.168 | 0.144 | 1.539 |
| Rpim | 0.054 | 0.048 | 0.522 |
| Total number of observations | 53206 | ||
| Number of reflections | 5331 | 269 | 268 |
| <I/σ(I)> | 8.9 | ||
| Completeness [%] | 99.0 | 98.9 | 96.4 |
| Redundancy | 10 | 10.4 | 7.6 |
| CC(1/2) | 0.939 | 0.671 |
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 |
