5EQF
Crystal structure of oxidized UDP-galactopyranose mutase from Corynebacterium diphtheriae with UDP bound in closed form
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 21-ID-G |
Synchrotron site | APS |
Beamline | 21-ID-G |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2014-06-22 |
Detector | MARMOSAIC 300 mm CCD |
Wavelength(s) | 0.97856 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 115.565, 82.691, 108.567 |
Unit cell angles | 90.00, 112.64, 90.00 |
Refinement procedure
Resolution | 28.250 - 2.145 |
R-factor | 0.179 |
Rwork | 0.176 |
R-free | 0.22810 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5eqd |
RMSD bond length | 0.008 |
RMSD bond angle | 1.192 |
Data reduction software | HKL-2000 |
Data scaling software | SCALEPACK |
Phasing software | PHASER (2.5.6) |
Refinement software | PHENIX ((phenix.refine: 1.9_1690)) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 30.400 | 30.400 | 2.230 |
High resolution limit [Å] | 2.145 | 4.630 | 2.145 |
Rmerge | 0.064 | 0.040 | 0.419 |
Rmeas | 0.069 | 0.043 | 0.458 |
Rpim | 0.025 | 0.016 | 0.181 |
Total number of observations | 376968 | ||
Number of reflections | 50316 | ||
<I/σ(I)> | 10.6 | ||
Completeness [%] | 97.5 | 99.2 | 90.5 |
Redundancy | 7.5 | 7.4 | 5.8 |
CC(1/2) | 0.999 | 0.956 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 5.5 | 298 | 100 mM Bis-Tris, 200 mM lithium sulfate, 21% PEG 3350 |