7JKK
Self-assembly of a 3D DNA crystal lattice (4x6 scramble duplex version) containing the J10 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 | 113.078, 113.078, 52.131 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 46.017 - 2.794 |
R-factor | 0.233 |
Rwork | 0.230 |
R-free | 0.25680 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5vy6 |
RMSD bond length | 0.005 |
RMSD bond angle | 0.729 |
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 | 2.850 |
High resolution limit [Å] | 2.794 | 7.590 | 2.800 |
Rmerge | 0.115 | 0.079 | 1.124 |
Rmeas | 0.121 | 0.084 | 1.191 |
Rpim | 0.038 | 0.027 | 0.388 |
Number of reflections | 6150 | 310 | 319 |
<I/σ(I)> | 12.3 | ||
Completeness [%] | 99.7 | 99.7 | 100 |
Redundancy | 10.2 | 10.5 | 9.4 |
CC(1/2) | 1.000 | 0.990 | 0.662 |
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 10 mM MgCl2, 2.5 mM spermine, 5 mM CaCl2, and 10% isopropanol was added to the reservoir with 2 uL added to the drop containing 4 uL of DNA stock |