5DGV
Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog
This is a non-PDB format compatible entry.
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SOLEIL BEAMLINE PROXIMA 1 |
Synchrotron site | SOLEIL |
Beamline | PROXIMA 1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2014-03-15 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 1.14271 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 437.140, 287.910, 303.850 |
Unit cell angles | 90.00, 98.76, 90.00 |
Refinement procedure
Resolution | 149.047 - 3.100 |
R-factor | 0.2389 |
Rwork | 0.238 |
R-free | 0.28400 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4v88 |
RMSD bond length | 0.006 |
RMSD bond angle | 1.018 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHENIX |
Refinement software | PHENIX |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 149.047 | 3.200 | |
High resolution limit [Å] | 3.100 | 125.000 | 3.100 |
Rmerge | 0.557 | 0.056 | 1.379 |
Rmeas | 0.594 | 0.067 | 1.575 |
Total number of observations | 6878841 | ||
Number of reflections | 1338357 | 12 | 121237 |
<I/σ(I)> | 7.97 | 7.86 | 1.34 |
Completeness [%] | 99.9 | 44.4 | 100 |
Redundancy | 5.1 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7 | 277.15 | Tris-acetate pH7.0, potassium thiocyanate, magnesium acetate, glycerol, spermidine, PEG 20000 |