5NDV
Crystal structure of Paromomycin 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 | 2015-07-15 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 1.0 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 434.530, 293.330, 295.790 |
| Unit cell angles | 90.00, 97.40, 90.00 |
Refinement procedure
| Resolution | 146.665 - 3.300 |
| R-factor | 0.2039 |
| Rwork | 0.203 |
| R-free | 0.25000 |
| Structure solution method | MOLECULAR REPLACEMENT |
| RMSD bond length | 0.006 |
| RMSD bond angle | 0.990 |
| 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] | 146.665 | 150.000 | 3.400 |
| High resolution limit [Å] | 3.300 | 146.665 | 3.300 |
| Rmerge | 0.321 | 1.876 | |
| Rmeas | 0.332 | 2.031 | |
| Total number of observations | 16313251 | ||
| Number of reflections | 1098455 | 93862 | |
| <I/σ(I)> | 7.37 | 0.96 | |
| Completeness [%] | 100.0 | 99.9 | |
| Redundancy | 14.851 | 6.681 | |
| CC(1/2) | 0.989 | 0.349 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7 | 277 | PEG 20K, KSCN, Mg Acetate, Tris-Acetate, Glycerol, Spermidine |
