5V6R
Structure of Plexin D1 intracellular domain
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | APS BEAMLINE 19-ID |
| Synchrotron site | APS |
| Beamline | 19-ID |
| Temperature [K] | 100 |
| Detector technology | CCD |
| Collection date | 2015-06-15 |
| Detector | ADSC QUANTUM 315 |
| Wavelength(s) | 0.9794 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 69.852, 164.544, 84.268 |
| Unit cell angles | 90.00, 99.47, 90.00 |
Refinement procedure
| Resolution | 37.095 - 2.700 |
| R-factor | 0.2165 |
| Rwork | 0.215 |
| R-free | 0.25640 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 3ig3 |
| RMSD bond length | 0.003 |
| RMSD bond angle | 0.616 |
| Data reduction software | HKL-2000 |
| Data scaling software | HKL-2000 |
| Phasing software | PHASER |
| Refinement software | PHENIX (1.9_1692) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 50.000 | |
| High resolution limit [Å] | 2.700 | |
| Rpim | 0.042 | 0.231 |
| Number of reflections | 51129 | |
| <I/σ(I)> | 29.9 | |
| Completeness [%] | 99.4 | |
| Redundancy | 3.9 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7.8 | 293 | 0.1 M imidazole (pH 7.8) and 15% (w/v) PEG8000 |
