8DEY
Ternary complex structure of Cereblon-DDB1 bound to IKZF2(ZF2,3) and the molecular glue DKY709
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 | 2019-10-22 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.9999 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 96.476, 96.227, 155.598 |
Unit cell angles | 90.00, 93.46, 90.00 |
Refinement procedure
Resolution | 84.150 - 3.700 |
R-factor | 0.3011 |
Rwork | 0.298 |
R-free | 0.34800 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 7u8f |
Data reduction software | XDS |
Data scaling software | Aimless (0.7.4) |
Phasing software | PHASER |
Refinement software | PHENIX (1.20.1_4487) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 84.150 | 84.150 | 3.800 |
High resolution limit [Å] | 3.700 | 16.550 | 3.700 |
Rmerge | 0.151 | 0.056 | 2.108 |
Rmeas | 0.169 | 0.064 | 2.352 |
Total number of observations | 152319 | ||
Number of reflections | 30254 | 341 | 2215 |
<I/σ(I)> | 5.92 | 20.08 | 0.76 |
Completeness [%] | 98.8 | 90 | 99.9 |
Redundancy | 5.035 | 4.097 | 5.257 |
CC(1/2) | 0.996 | 0.993 | 0.307 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 6.5 | 277 | 1.6 M potassium/sodium phosphate, pH 6.5 |