5NDG
Crystal structure of geneticin (G418) bound to the yeast 80S ribosome
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] | 90 |
Detector technology | PIXEL |
Collection date | 2014-11-28 |
Detector | DECTRIS PILATUS 6M-F |
Wavelength(s) | 1.0 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 443.590, 297.320, 300.150 |
Unit cell angles | 90.00, 99.28, 90.00 |
Refinement procedure
Resolution | 91.755 - 3.700 |
R-factor | 0.2105 |
Rwork | 0.210 |
R-free | 0.25300 |
RMSD bond length | 0.009 |
RMSD bond angle | 1.447 |
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] | 91.755 | 115.000 | 3.800 |
High resolution limit [Å] | 3.700 | 100.000 | 3.700 |
Rmerge | 0.159 | 12.300 | 1.697 |
Rmeas | 0.176 | 17.395 | 1.892 |
Number of reflections | 814796 | 1 | 62491 |
<I/σ(I)> | 8.28 | 0.9 | |
Completeness [%] | 99.9 | 7.1 | 99.9 |
Redundancy | 5.209 | 2 | 5.034 |
CC(1/2) | 0.998 | 0.478 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7 | 277 | PEG 20K, KSCN, Mg Acetate, Tris-Acetate, Glycerol, Spermidine |