5NDW
Crystal structure of aminoglycoside TC007 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 | SLS BEAMLINE X06SA |
| Synchrotron site | SLS |
| Beamline | X06SA |
| Temperature [K] | 90 |
| Detector technology | PIXEL |
| Collection date | 2016-04-10 |
| Detector | DECTRIS EIGER X 16M |
| Wavelength(s) | 1.0 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 442.140, 298.760, 299.770 |
| Unit cell angles | 90.00, 99.49, 90.00 |
Refinement procedure
| Resolution | 147.832 - 3.700 |
| R-factor | 0.1927 |
| Rwork | 0.192 |
| R-free | 0.23470 |
| Structure solution method | MOLECULAR REPLACEMENT |
| RMSD bond length | 0.009 |
| RMSD bond angle | 1.382 |
| 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] | 147.832 | 150.000 | 3.800 |
| High resolution limit [Å] | 3.700 | 147.832 | 3.700 |
| Rmerge | 0.303 | 1.765 | |
| Rmeas | 0.306 | 1.904 | |
| Total number of observations | 38865024 | ||
| Number of reflections | 814535 | 62185 | |
| <I/σ(I)> | 13.97 | 0.98 | |
| Completeness [%] | 99.9 | 99.5 | |
| Redundancy | 47.714 | 6.924 | |
| CC(1/2) | 0.999 | 0.361 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7 | 277 | PEG 20K, KSCN, Mg Acetate, Tris-Acetate, Glycerol, Spermidine |
