6LYC
Crystal structure of the NOD SIRPa complex with D4-2
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | SPRING-8 BEAMLINE BL44XU |
| Synchrotron site | SPring-8 |
| Beamline | BL44XU |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2018-12-18 |
| Detector | DECTRIS EIGER X 16M |
| Wavelength(s) | 0.9000 |
| Spacegroup name | C 1 2 1 |
| Unit cell lengths | 82.967, 30.721, 43.482 |
| Unit cell angles | 90.00, 100.26, 90.00 |
Refinement procedure
| Resolution | 28.750 - 1.360 |
| R-factor | 0.204 |
| Rwork | 0.204 |
| R-free | 0.21600 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 2yz1 |
| RMSD bond length | 0.010 |
| RMSD bond angle | 1.119 |
| Data reduction software | XDS (VERSION Jan 26, 2018 BUILT=20180808) |
| Data scaling software | autoPROC (snapshot_20181127) |
| Phasing software | MOLREP (11.6.04) |
| Refinement software | PHENIX (1.17.1-3660) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 40.820 | 1.440 |
| High resolution limit [Å] | 1.360 | 1.360 |
| Rmerge | 0.042 | 0.393 |
| Number of reflections | 22244 | |
| <I/σ(I)> | 12.4 | |
| Completeness [%] | 95.1 | 97 |
| Redundancy | 3.4 | 3.6 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 293 | 0.1 M imidazole, 0.1 M MES (pH 6.5), 0.09 M NaF, 0.09 M NaBr, 0.09 M NaI, 12.5% MPD (2-Methyl-2,4-pentanediol), 12.5% PEG1000, and 12.5% PEG3350 |
