6XEI
Self-assembly of a 3D DNA crystal lattice (4x5 junction version) containing the J9 immobile Holliday junction
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 | 2018-03-15 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 0.92 |
Spacegroup name | P 32 |
Unit cell lengths | 68.731, 68.731, 60.829 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 34.365 - 3.049 |
R-factor | 0.2468 |
Rwork | 0.245 |
R-free | 0.26740 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6x8c |
RMSD bond length | 0.005 |
RMSD bond angle | 0.669 |
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 | 3.100 |
High resolution limit [Å] | 3.049 | 8.270 | 3.050 |
Rmerge | 0.093 | 0.096 | 0.725 |
Rmeas | 0.098 | 0.102 | 0.770 |
Rpim | 0.031 | 0.033 | 0.251 |
Number of reflections | 5886 | 305 | 199 |
<I/σ(I)> | 5.5 | ||
Completeness [%] | 95.9 | 99 | 66.8 |
Redundancy | 9.7 | 10.5 | 7.7 |
CC(1/2) | 0.972 | 0.990 | 0.901 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 298 | 0.5 mL of 0.05 M Cacodylate pH 6.0 with 20 mM MgCl2, 1.0 mM spermine, and 15% Ethanol was added to the reservoir with 2 uL added to the drop containing 4 uL of DNA stock |