6WE9
YTH domain of human YTHDC1 with 11mer ssDNA Containing N6mA
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 22-ID |
Synchrotron site | APS |
Beamline | 22-ID |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2019-12-16 |
Detector | DECTRIS EIGER X 16M |
Wavelength(s) | 1.0000 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 119.966, 42.535, 90.019 |
Unit cell angles | 90.00, 103.46, 90.00 |
Refinement procedure
Resolution | 35.310 - 1.590 |
R-factor | 0.2231 |
Rwork | 0.222 |
R-free | 0.24560 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4r3h |
RMSD bond length | 0.003 |
RMSD bond angle | 0.555 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | PHENIX |
Refinement software | PHENIX (1.17.1_3660) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 35.310 | 1.650 |
High resolution limit [Å] | 1.590 | 1.590 |
Rmerge | 0.204 | 0.693 |
Rpim | 0.094 | 0.543 |
Number of reflections | 54367 | 3725 |
<I/σ(I)> | 10.4 | 1.9 |
Completeness [%] | 91.6 | |
Redundancy | 4.7 | 1.7 |
CC(1/2) | 0.468 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 6 | 292 | 0.1 M Bis-Tris pH 6.0, 0.2 M ammonium sulfate, 29% (w/v) polyethylene glycol (PEG) 3350 |