7YTA
crystal structure of NtAGDP3 AGD1-2 in complex with an H3K9me2 peptide
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRF BEAMLINE BL19U1 |
Synchrotron site | SSRF |
Beamline | BL19U1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2019-05-25 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 0.9789 |
Spacegroup name | P 41 21 2 |
Unit cell lengths | 70.741, 70.741, 217.989 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 27.470 - 2.310 |
R-factor | 0.2487 |
Rwork | 0.247 |
R-free | 0.27080 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5zwx |
Data reduction software | HKL-3000 |
Data scaling software | HKL-2000 |
Phasing software | PHENIX |
Refinement software | PHENIX (1.19.2_4158) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 50.000 | 2.380 |
High resolution limit [Å] | 2.300 | 4.950 | 2.300 |
Rmerge | 0.090 | 0.038 | 0.979 |
Rmeas | 0.092 | 0.039 | 1.003 |
Rpim | 0.019 | 0.008 | 0.215 |
Total number of observations | 629775 | ||
Number of reflections | 25568 | 2810 | 2505 |
<I/σ(I)> | 3.9 | ||
Completeness [%] | 100.0 | 99.9 | 100 |
Redundancy | 24.6 | 23.1 | 21 |
CC(1/2) | 0.999 | 0.977 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 9 | 293 | 25% PEG 1500, 0.1 M sodium chloride and 0.1 M bis-Tris propane, pH 9.0 |