7JKH
Self-assembly of a 3D DNA crystal lattice (4x6 scramble duplex version) containing the J5 immobile Holliday junction with R3 symmetry
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 | 2018-08-15 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 1 |
Spacegroup name | H 3 |
Unit cell lengths | 113.260, 113.260, 49.896 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 44.473 - 3.107 |
R-factor | 0.2065 |
Rwork | 0.206 |
R-free | 0.21480 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5vy6 |
RMSD bond length | 0.006 |
RMSD bond angle | 0.864 |
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 | 3.150 |
High resolution limit [Å] | 3.100 | 8.400 | 3.100 |
Rmerge | 0.060 | 0.037 | 0.486 |
Rmeas | 0.063 | 0.039 | 0.517 |
Rpim | 0.020 | 0.012 | 0.173 |
Total number of observations | 33207 | ||
Number of reflections | 3640 | 212 | 83 |
<I/σ(I)> | 6 | ||
Completeness [%] | 84.7 | 100 | 39.3 |
Redundancy | 9.1 | 10.6 | 7.4 |
CC(1/2) | 0.999 | 0.902 |
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 |