7YMQ
Crystal structure of lysoplasmalogen specific phopholipase D, F211L mutant
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SPRING-8 BEAMLINE BL32XU |
Synchrotron site | SPring-8 |
Beamline | BL32XU |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-06-05 |
Detector | DECTRIS EIGER X 9M |
Wavelength(s) | 1.00 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 111.570, 93.750, 147.810 |
Unit cell angles | 90.00, 90.36, 90.00 |
Refinement procedure
Resolution | 46.880 - 2.290 |
R-factor | 0.1875 |
Rwork | 0.185 |
R-free | 0.23730 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 2pz0 |
RMSD bond length | 0.008 |
RMSD bond angle | 0.946 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX (1.13_2998) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 47.940 | 2.430 |
High resolution limit [Å] | 2.290 | 2.290 |
Number of reflections | 129674 | 21072 |
<I/σ(I)> | 5.7 | |
Completeness [%] | 94.4 | |
Redundancy | 3.5 | |
CC(1/2) | 0.987 | 0.549 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 5 | 293 | PEG3350, Na Citrate, Ammonium Acetate |