7Y4Q
Semaphorin 6D in complex with Plexin A1
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | PHOTON FACTORY BEAMLINE BL-17A |
| Synchrotron site | Photon Factory |
| Beamline | BL-17A |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2016-06-14 |
| Detector | DECTRIS PILATUS3 S 6M |
| Wavelength(s) | 0.9800 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 173.139, 198.508, 180.495 |
| Unit cell angles | 90.00, 117.83, 90.00 |
Refinement procedure
| Resolution | 49.430 - 4.700 |
| R-factor | 0.2416 |
| Rwork | 0.241 |
| R-free | 0.25800 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 7D07 7CYT |
| RMSD bond length | 0.006 |
| RMSD bond angle | 1.312 |
| Data reduction software | XDS |
| Data scaling software | Aimless |
| Phasing software | MOLREP |
| Refinement software | PHENIX (1.13_2998+SVN) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 49.430 | 4.840 |
| High resolution limit [Å] | 4.700 | 4.700 |
| Rmerge | 0.170 | 0.938 |
| Number of reflections | 110174 | 4580 |
| <I/σ(I)> | 6.1 | 1.5 |
| Completeness [%] | 99.2 | 99.8 |
| Redundancy | 3.4 | 3.5 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7.4 | 283 | 150 mM NaCl and 10 mM Tris-Cl (pH 7.4) |
