5DGF
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 | 2014-09-10 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 1.148 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 435.580, 287.330, 303.820 |
Unit cell angles | 90.00, 98.95, 90.00 |
Refinement procedure
Resolution | 99.535 - 3.300 |
R-factor | 0.252 |
Rwork | 0.251 |
R-free | 0.30970 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4v88 |
RMSD bond length | 0.006 |
RMSD bond angle | 1.020 |
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] | 99.535 | 3.400 | |
High resolution limit [Å] | 3.300 | 75.000 | 3.300 |
Rmerge | 0.590 | 0.069 | 2.815 |
Rmeas | 0.625 | 0.084 | 3.061 |
Total number of observations | 8339030 | ||
Number of reflections | 1103604 | 56 | 94195 |
<I/σ(I)> | 6 | 14.18 | 0.99 |
Completeness [%] | 100.0 | 50.9 | 100 |
Redundancy | 7.6 |
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 |