7TED
Human Ornithine Aminotransferase cocrystallized with its inhibitor, (S,E)-3-amino-4-(fluoromethylene)cyclopent-1-ene-1-carboxylate
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 21-ID-D |
Synchrotron site | APS |
Beamline | 21-ID-D |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-12-13 |
Detector | DECTRIS EIGER X 9M |
Wavelength(s) | 1.127 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 200.110, 115.430, 185.760 |
Unit cell angles | 90.00, 94.85, 90.00 |
Refinement procedure
Resolution | 43.400 - 2.630 |
R-factor | 0.2815 |
Rwork | 0.281 |
R-free | 0.28760 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 1oat |
RMSD bond length | 0.011 |
RMSD bond angle | 1.550 |
Data reduction software | XDS |
Data scaling software | Aimless |
Phasing software | PHASER |
Refinement software | PHENIX (1.19.2_4158) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 43.730 | 2.700 |
High resolution limit [Å] | 2.630 | 2.630 |
Number of reflections | 123624 | 9062 |
<I/σ(I)> | 8.2 | 1.7 |
Completeness [%] | 98.9 | |
Redundancy | 4.7 | |
CC(1/2) | 0.987 | 0.294 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7.8 | 293 | After purification, OAT was buffer exchanged into the crystallization buffer (50 mM Tricine pH 7.8) supplied supplemented with 1 mM 2-ketoglutarate. The protein was concentrated to 6.5 mg/mL. Previously reported crystallization conditions were optimized using the hanging drop vapor diffusion method by varying PEG 6000 (8-12%), NaCl (100-250 mM), and glycerol (0%-10%) with 100 mM Tricine pH 7.8 was being kept constant as the buffer. For each hanging drop, 2 uL of protein solution was mixed with an equal volume of well solution and 0.5 uL of ligand. The crystals with the best morphology and size grew in a final condition containing 12% PEG 6000, 200 mM NaCl, 10% glycerol, and 100 mM Tricine pH 7.8. Crystals were transferred to a cryo-protectant solution (well solution supplemented with 30% glycerol) and flash-frozen in liquid nitrogen |