6XSA
Crystal structure of human Vps29 complexed with RaPID-derived cyclic peptide RT-L2
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | AUSTRALIAN SYNCHROTRON BEAMLINE MX2 |
| Synchrotron site | Australian Synchrotron |
| Beamline | MX2 |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2018-11-10 |
| Detector | DECTRIS EIGER X 16M |
| Wavelength(s) | 0.953700 |
| Spacegroup name | P 21 21 21 |
| Unit cell lengths | 37.480, 132.300, 39.870 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 38.170 - 1.830 |
| R-factor | 0.192180471935 |
| Rwork | 0.190 |
| R-free | 0.22696 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 1w24 |
| RMSD bond length | 0.007 |
| RMSD bond angle | 0.968 |
| Data reduction software | XDS |
| Data scaling software | Aimless (0.7.2) |
| Phasing software | PHASER (2.5.6) |
| Refinement software | PHENIX (1.10.1) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 44.100 | 44.100 | 1.870 |
| High resolution limit [Å] | 1.830 | 8.960 | 1.830 |
| Rmerge | 0.080 | 0.040 | 0.264 |
| Rmeas | 0.087 | 0.046 | 0.286 |
| Rpim | 0.035 | 0.022 | 0.110 |
| Total number of observations | 528 | 6875 | |
| Number of reflections | 18017 | 128 | 1041 |
| <I/σ(I)> | 15.5 | 18.7 | 6.4 |
| Completeness [%] | 98.6 | 63.3 | 93.5 |
| Redundancy | 6.3 | 4.1 | 6.6 |
| CC(1/2) | 0.996 | 0.993 | 0.976 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7 | 293 | 0.1 M HEPES, 1 M succinic and 1% PEG2000 MME |
