8YK5
Structure of glycerophosphoethanolamine ethanolaminephosphodiesterase from Streptomyces sanglieri
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SPRING-8 BEAMLINE BL32XU |
Synchrotron site | SPring-8 |
Beamline | BL32XU |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2014-06-13 |
Detector | RAYONIX MX300HE |
Wavelength(s) | 1 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 143.742, 179.184, 88.450 |
Unit cell angles | 90.00, 120.44, 90.00 |
Refinement procedure
Resolution | 40.252 - 2.100 |
R-factor | 0.1831 |
Rwork | 0.183 |
R-free | 0.20990 |
Structure solution method | MOLECULAR REPLACEMENT |
RMSD bond length | 0.008 |
RMSD bond angle | 0.891 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | PHENIX (1.13_2998) |
Refinement software | PHENIX (1.13_2998) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 50.000 | 2.180 |
High resolution limit [Å] | 2.100 | 4.520 | 2.100 |
Rmerge | 0.049 | 0.785 | |
Rmeas | 0.139 | 0.057 | 0.945 |
Rpim | 0.071 | 0.029 | 0.518 |
Number of reflections | 108015 | 11422 | 8610 |
<I/σ(I)> | 6.6 | ||
Completeness [%] | 95.5 | 100 | 76.4 |
Redundancy | 3.6 | 3.9 | 2.7 |
CC(1/2) | 0.996 | 0.586 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 298 | 0.1 M Bis-tris propane buffer (pH 6.5), 30% PEG 3350, 0.2 M sodium fluoride |