6KDB
Crystal structure of human DNMT3B-DNMT3L in complex with DNA containing CpGpT site
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | NSRRC BEAMLINE TPS 05A |
Synchrotron site | NSRRC |
Beamline | TPS 05A |
Temperature [K] | 110 |
Detector technology | CCD |
Collection date | 2018-04-11 |
Detector | RAYONIX MX300-HS |
Wavelength(s) | 1 |
Spacegroup name | P 31 |
Unit cell lengths | 194.827, 194.827, 49.844 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 29.615 - 2.862 |
R-factor | 0.1641 |
Rwork | 0.163 |
R-free | 0.20200 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5yx2 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | PHASER |
Refinement software | PHENIX (1.14_3260) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 30.000 | 2.950 |
High resolution limit [Å] | 2.850 | 2.850 |
Rmerge | 0.047 | 0.524 |
Number of reflections | 48145 | 2592 |
<I/σ(I)> | 29.05 | |
Completeness [%] | 99.2 | |
Redundancy | 4.5 | |
CC(1/2) | 0.807 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 278 | 50 mM MES (pH 5.6), 200 mM KCl, 10 mM MgSO4, 10% PEG 400 |