5YKX
The crystal structure of Macrobrachium rosenbergii nodavirus P-domain with Cd ion
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SPRING-8 BEAMLINE BL44XU |
Synchrotron site | SPring-8 |
Beamline | BL44XU |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2015-07-21 |
Detector | RAYONIX MX300HE |
Wavelength(s) | 0.9 |
Spacegroup name | P 43 3 2 |
Unit cell lengths | 134.175, 134.175, 134.175 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 29.300 - 2.000 |
R-factor | 0.15781 |
Rwork | 0.156 |
R-free | 0.19478 |
Structure solution method | MOLECULAR REPLACEMENT |
RMSD bond length | 0.022 |
RMSD bond angle | 2.221 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | MOLREP |
Refinement software | REFMAC (5.7.0032) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 30.000 | 2.030 |
High resolution limit [Å] | 2.000 | 2.000 |
Rmeas | 0.115 | 0.853 |
Rpim | 0.025 | 0.191 |
Number of reflections | 28636 | |
<I/σ(I)> | 41.3 | |
Completeness [%] | 99.9 | 99.8 |
Redundancy | 20 | 19 |
CC(1/2) | 0.953 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 291 | 1.0M Sodium acetate trihydrate, 0.1M Sodium HEPES 7.5, 0.05M Cadmium sulfate 8/3-hydrate |