7SGJ
Crystal Structure of Danio rerio Histone Deacetylase 10 in Complex with DKFZ-711
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 24-ID-C |
Synchrotron site | APS |
Beamline | 24-ID-C |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2019-12-15 |
Detector | DECTRIS EIGER X 16M |
Wavelength(s) | 0.97911 |
Spacegroup name | P 31 2 1 |
Unit cell lengths | 80.408, 80.408, 248.270 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 69.640 - 2.150 |
R-factor | 0.1834 |
Rwork | 0.182 |
R-free | 0.21590 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5td7 |
RMSD bond length | 0.007 |
RMSD bond angle | 0.868 |
Data reduction software | iMOSFLM |
Data scaling software | Aimless |
Phasing software | PHASER |
Refinement software | PHENIX (1.14_3260) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 69.840 | 2.210 |
High resolution limit [Å] | 2.150 | 2.150 |
Rmerge | 0.102 | 1.119 |
Rpim | 0.050 | 0.569 |
Number of reflections | 51724 | 4111 |
<I/σ(I)> | 13 | 2.1 |
Completeness [%] | 100.0 | |
Redundancy | 9.5 | |
CC(1/2) | 0.998 | 0.639 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 277 | 10 mg/mL HDAC10, 2 mM DKFZ-711, 1:1000 trypsin:HDAC10, 0.100 M Potassium Phosphate Monobasic, 0.100 M Potassium Phosphate Dibasic, and 20% (w/v) PEG3350 |