3H6N
Crystal Structure of the ubiquitin-like domain of plexin D1
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | APS BEAMLINE 19-ID |
| Synchrotron site | APS |
| Beamline | 19-ID |
| Detector technology | CCD |
| Collection date | 2009-03-18 |
| Detector | ADSC QUANTUM 315 |
| Wavelength(s) | 0.97942 |
| Spacegroup name | C 1 2 1 |
| Unit cell lengths | 81.777, 27.051, 52.653 |
| Unit cell angles | 90.00, 114.06, 90.00 |
Refinement procedure
| Resolution | 30.000 - 2.004 |
| R-factor | 0.244 |
| Rwork | 0.243 |
| R-free | 0.27600 |
| Structure solution method | SAD |
| RMSD bond length | 0.012 |
| RMSD bond angle | 1.095 |
| Data reduction software | DENZO |
| Data scaling software | SCALEPACK |
| Phasing software | SHELX |
| Refinement software | REFMAC (5.5.0072) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 30.000 | 30.000 | 2.030 |
| High resolution limit [Å] | 2.000 | 5.420 | 2.000 |
| Rmerge | 0.086 | 0.069 | 0.499 |
| Number of reflections | 7245 | ||
| <I/σ(I)> | 9.6 | ||
| Completeness [%] | 99.5 | 98.5 | 99.7 |
| Redundancy | 4.4 | 3.9 | 3.6 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 5.2 | 298 | 1.39M sodium citrate, 0.1M sodium cacodylate. The protein stock solution was adjusted to contain 15 mM TCEP, supplemented with 1:100 (w/w) chymotrypsin, pH 5.2, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
