6XGJ
Self-assembly of a 3D DNA crystal lattice (4x5 junction version) containing the J32 immobile Holliday junction
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | ALS BEAMLINE 5.0.2 |
Synchrotron site | ALS |
Beamline | 5.0.2 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2018-04-15 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 0.92 |
Spacegroup name | P 32 |
Unit cell lengths | 68.988, 68.988, 60.793 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 34.494 - 3.071 |
R-factor | 0.2259 |
Rwork | 0.224 |
R-free | 0.25310 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6x8c |
RMSD bond length | 0.008 |
RMSD bond angle | 0.894 |
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] | 3.050 | 8.270 | 3.050 |
Rmerge | 0.070 | 0.040 | 0.470 |
Rmeas | 0.074 | 0.042 | 0.504 |
Rpim | 0.023 | 0.014 | 0.177 |
Number of reflections | 5625 | 296 | 220 |
<I/σ(I)> | 6.1 | ||
Completeness [%] | 93.4 | 99.3 | 72.8 |
Redundancy | 9.2 | 10.4 | 6.3 |
CC(1/2) | 1.000 | 0.999 | 0.953 |
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 |