6WR3
Self-assembly of a 3D DNA crystal lattice (4x5 duplex version) containing the J36 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 S 6M |
Wavelength(s) | 0.92 |
Spacegroup name | P 32 |
Unit cell lengths | 68.816, 68.816, 60.564 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 34.408 - 3.173 |
R-factor | 0.2485 |
Rwork | 0.247 |
R-free | 0.25520 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5kek |
RMSD bond length | 0.005 |
RMSD bond angle | 0.710 |
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 | 3.200 |
High resolution limit [Å] | 3.150 | 8.540 | 3.150 |
Rmerge | 0.119 | 0.074 | 0.382 |
Rmeas | 0.127 | 0.080 | 0.414 |
Rpim | 0.042 | 0.028 | 0.154 |
Number of reflections | 4722 | 261 | 154 |
<I/σ(I)> | 6 | ||
Completeness [%] | 87.3 | 96 | 55 |
Redundancy | 8.9 | 9.5 | 5.6 |
CC(1/2) | 0.996 | 0.995 | 0.930 |
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 with20 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 |