5FB3
Structure of glycerophosphate dehydrogenase in complex with NADPH
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | PHOTON FACTORY BEAMLINE AR-NW12A |
Synchrotron site | Photon Factory |
Beamline | AR-NW12A |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2015-06-12 |
Detector | ADSC QUANTUM 270 |
Wavelength(s) | 1.0 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 102.182, 123.335, 166.724 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 50.000 - 2.450 |
R-factor | 0.2098 |
Rwork | 0.207 |
R-free | 0.25990 |
Structure solution method | SIRAS |
RMSD bond length | 0.008 |
RMSD bond angle | 1.265 |
Data scaling software | HKL-2000 |
Refinement software | REFMAC (5.8.0073) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 50.000 | 2.490 |
High resolution limit [Å] | 2.450 | 6.650 | 2.450 |
Rmerge | 0.070 | 0.032 | 0.676 |
Rmeas | 0.076 | 0.035 | 0.736 |
Rpim | 0.029 | 0.014 | 0.288 |
Total number of observations | 520646 | ||
Number of reflections | 78117 | ||
<I/σ(I)> | 7.2 | ||
Completeness [%] | 100.0 | 99.5 | 100 |
Redundancy | 6.7 | 6.5 | 6.5 |
CC(1/2) | 0.998 | 0.898 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 6.5 | 293 | ammonium sulfate |