2XV7
Crystal structure of vascular endothelial growth factor D
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | SLS BEAMLINE X06SA |
| Synchrotron site | SLS |
| Beamline | X06SA |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2010-05-24 |
| Detector | DECTRIS PILATUS 6M |
| Spacegroup name | P 61 2 2 |
| Unit cell lengths | 95.720, 95.720, 70.940 |
| Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
| Resolution | 19.893 - 2.900 |
| R-factor | 0.2626 |
| Rwork | 0.255 |
| R-free | 0.33250 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | VEGF-C FROM PDB ENTRY 2X1W |
| RMSD bond length | 0.010 |
| RMSD bond angle | 1.543 |
| Data reduction software | XDS |
| Data scaling software | XDS |
| Phasing software | MOLREP |
| Refinement software | PHENIX ((PHENIX.REFINE)) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 80.000 | 3.050 |
| High resolution limit [Å] | 2.900 | 2.900 |
| Rmerge | 0.090 | 0.770 |
| Number of reflections | 36742 | |
| <I/σ(I)> | 18 | 3.8 |
| Completeness [%] | 99.7 | 99.7 |
| Redundancy | 8.8 | 9.2 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | 4.2 | A SINGLE VEGF-D CRYSTAL GREW IN 6 WEEKS AT ROOM TEMPERATURE OVER A RESERVOIR SOLUTION OF 0.1 M PHOSPHATE/CITRATE BUFFER AT PH 4.2, 40 % ETHANOL (V/V), 5 % PEG 1000 (W/V). |
