5FDU
Crystal structure of the Metalnikowin I antimicrobial peptide bound to the Thermus thermophilus 70S 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] | 100 |
Detector technology | PIXEL |
Collection date | 2015-12-04 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.987 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 209.650, 448.090, 623.380 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 49.715 - 2.900 |
R-factor | 0.1857 |
Rwork | 0.183 |
R-free | 0.23400 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4y4o |
RMSD bond length | 0.030 |
RMSD bond angle | 1.976 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 2.980 | |
High resolution limit [Å] | 2.900 | 12.970 | 2.900 |
Rmerge | 0.157 | 0.024 | 1.666 |
Rmeas | 0.170 | 0.026 | 1.810 |
Total number of observations | 8857225 | ||
Number of reflections | 1275870 | 14585 | 93796 |
<I/σ(I)> | 11.61 | 54.71 | 1.1 |
Completeness [%] | 99.6 | 95.9 | 99.5 |
Redundancy | 6.9 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 7.6 | 293 | Tris-HCl, PEG 20000, MPD, Arginine |