7PJD
The X-ray structure of juvenile hormone diol kinase from the silk worm Bombyx mori.
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | DIAMOND BEAMLINE I03 |
| Synchrotron site | Diamond |
| Beamline | I03 |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2017-01-15 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 0.976 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 65.640, 79.430, 100.930 |
| Unit cell angles | 90.00, 91.60, 90.00 |
Refinement procedure
| Resolution | 50.500 - 1.990 |
| R-factor | 0.1932 |
| Rwork | 0.190 |
| R-free | 0.24760 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 5f6t 4ndd |
| RMSD bond length | 0.012 |
| RMSD bond angle | 1.704 |
| Data reduction software | xia2 |
| Data scaling software | Aimless (0.5.31) |
| Phasing software | MrBUMP |
| Refinement software | REFMAC (5.8.0267) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 50.590 | 50.590 | 2.040 |
| High resolution limit [Å] | 1.990 | 8.900 | 1.990 |
| Rmerge | 0.108 | 0.029 | 1.593 |
| Rmeas | 0.117 | 0.031 | 1.722 |
| Rpim | 0.045 | 0.012 | 0.650 |
| Total number of observations | 5607 | 36175 | |
| Number of reflections | 71164 | 848 | 5237 |
| <I/σ(I)> | 10.8 | 49.1 | 1.3 |
| Completeness [%] | 99.9 | 99.5 | 99.9 |
| Redundancy | 6.8 | 6.6 | 6.9 |
| CC(1/2) | 0.999 | 0.999 | 0.645 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 5.5 | 294 | Protein concentration: 10mg/ml in 0.1 M Bis-Tris pH 5.5 with 25 % (v/v) PEG 3350 as precipitant. The protein was dialysed against 1mM Ca2+ in phosphate-buffered saline before crystallisation. |
