1KD1
Co-crystal Structure of Spiramycin bound to the 50S Ribosomal Subunit of Haloarcula marismortui
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 19-ID |
Synchrotron site | APS |
Beamline | 19-ID |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2000-09-28 |
Detector | CUSTOM-MADE |
Wavelength(s) | 1.033 |
Spacegroup name | C 2 2 21 |
Unit cell lengths | 212.902, 300.474, 575.176 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 20.000 * - 3.000 |
R-factor | 0.22 |
Rwork | 0.220 |
R-free | 0.26900 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 1JJ2.pdb |
RMSD bond length | 0.009 |
RMSD bond angle | 17.700 * |
Data reduction software | DENZO |
Data scaling software | SCALEPACK |
Phasing software | CNS |
Refinement software | CNS |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 50.000 | 3.110 |
High resolution limit [Å] | 3.000 | 3.000 |
Rmerge | 0.152 | 0.850 * |
Number of reflections | 363802 | |
<I/σ(I)> | 12.1 | 2.6 |
Completeness [%] | 91.7 * | 78 * |
Redundancy | 7.4 * | 5 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | back-extraction, vapor diffusion * | 7.1 * | 292 | Ban, N., (2000) Science, 289, 905. * |
Crystallization Reagents
ID | crystal ID | solution ID | reagent name | concentration | details |
1 | 1 | 1 | PEG 6000 | ||
2 | 1 | 1 | KCl | ||
3 | 1 | 1 | NH4Cl | ||
4 | 1 | 1 | MgCl2 | ||
5 | 1 | 1 | NaOAC |
Crystallization Reagents in Literatures
ID | crystal ID | solution | reagent name | concentration (unit) | details |
1 | 1 | reservoir | 1.2 (M) | ||
2 | 1 | reservoir | 0.5 (M) | ||
3 | 1 | reservoir | Kacetate | 100 (mM) | |
4 | 1 | reservoir | 30 (mM) | ||
5 | 1 | reservoir | PEG6000 | 7 (%) | |
6 | 1 | reservoir | Tris | 15 (mM) | |
7 | 1 | reservoir | MES | 15 (mM) | |
8 | 1 | reservoir | 1 (mM) | pH7.1 |