8DGG
Structure of glycosylated LAG-3 homodimer
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRL BEAMLINE BL12-1 |
Synchrotron site | SSRL |
Beamline | BL12-1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-09-15 |
Detector | DECTRIS EIGER2 XE 16M |
Wavelength(s) | 0.97946 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 71.690, 97.670, 174.490 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 36.630 - 3.780 |
R-factor | 0.2663 |
Rwork | 0.264 |
R-free | 0.30320 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | Manually corrected model from AlphaFold |
RMSD bond length | 0.005 |
RMSD bond angle | 0.758 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX (1.20.1_4487) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 40.000 | 40.000 | 3.880 |
High resolution limit [Å] | 3.780 | 16.910 | 3.780 |
Rmerge | 0.128 | 0.070 | 4.042 |
Rmeas | 0.130 | 0.071 | 4.091 |
Number of reflections | 12782 | 161 | 896 |
<I/σ(I)> | 18.74 | ||
Completeness [%] | 99.8 | ||
Redundancy | 40 | ||
CC(1/2) | 1.000 | 1.000 | 0.539 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 8.1 | 289 | 0.1M Tris, 0.05M L-Arginine, 0.05M L-Glutamic acid monosodium salt hydrate, 14% PEG4000 |