24XH
Crystal structure of the diaminopimelate dehydrogenase from Pyrococcus sp. in its apo form
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | ROTATING ANODE |
| Source details | RIGAKU |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2025-03-28 |
| Detector | RIGAKU HyPix-6000HE |
| Wavelength(s) | 1.54184 |
| Spacegroup name | H 3 2 |
| Unit cell lengths | 121.959, 121.959, 132.921 |
| Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
| Resolution | 23.050 - 3.000 |
| R-factor | 0.24191 |
| Rwork | 0.238 |
| R-free | 0.31802 |
| Structure solution method | MOLECULAR REPLACEMENT |
| RMSD bond length | 0.013 |
| RMSD bond angle | 1.907 |
| Data reduction software | CrysalisPro |
| Data scaling software | Aimless |
| Phasing software | MOLREP |
| Refinement software | REFMAC (5.8.0267) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 23.050 | 3.180 |
| High resolution limit [Å] | 3.000 | 3.000 |
| Rmerge | 0.266 | 0.580 |
| Rmeas | 0.281 | 0.608 |
| Rpim | 0.090 | 0.182 |
| Total number of observations | 77288 | 13754 |
| Number of reflections | 7780 | 1251 |
| <I/σ(I)> | 5.4 | 2.1 |
| Completeness [%] | 99.7 | |
| Redundancy | 9.9 | 11 |
| CC(1/2) | 0.971 | 0.939 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 288 | 0.2M Potassium chloride, 0.05M HEPES pH 7.5, 35% v/v Polyethylene glycol 400 |
