5HD1
Crystal structure of antimicrobial peptide Pyrrhocoricin 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 | APS BEAMLINE 24-ID-C |
Synchrotron site | APS |
Beamline | 24-ID-C |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2015-08-13 |
Detector | DECTRIS PILATUS 6M-F |
Wavelength(s) | 0.97920 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 210.009, 450.125, 622.841 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 49.694 - 2.700 |
R-factor | 0.2223 |
Rwork | 0.220 |
R-free | 0.27210 |
Structure solution method | MOLECULAR REPLACEMENT |
RMSD bond length | 0.006 |
RMSD bond angle | 0.962 |
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 | 49.694 | 2.860 |
High resolution limit [Å] | 2.700 | 8.000 | 2.700 |
Rmerge | 0.163 | 0.031 | 1.340 |
Rmeas | 0.182 | 0.035 | 1.501 |
Total number of observations | 7843380 | ||
Number of reflections | 1584056 | 62464 | 251513 |
<I/σ(I)> | 9.54 | 38.69 | 1.12 |
Completeness [%] | 99.3 | 98.8 | 98.2 |
Redundancy | 4.951 | ||
CC(1/2) | 0.999 | 0.250 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION | 292 | 0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME |