5DWB
Crystal structure of specific restriction endonuclease AgeI-DNA complex
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | EMBL/DESY, HAMBURG BEAMLINE X13 |
Synchrotron site | EMBL/DESY, HAMBURG |
Beamline | X13 |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2008-12-04 |
Detector | MARMOSAIC 225 mm CCD |
Wavelength(s) | 0.8150 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 50.587, 87.093, 66.521 |
Unit cell angles | 90.00, 99.82, 90.00 |
Refinement procedure
Resolution | 25.462 - 2.400 |
R-factor | 0.1828 |
Rwork | 0.179 |
R-free | 0.21730 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5dwa |
RMSD bond length | 0.005 |
RMSD bond angle | 0.916 |
Data reduction software | MOSFLM (6.2.6) |
Data scaling software | SCALA (3.2.19) |
Phasing software | MOLREP (6.0) |
Refinement software | PHENIX (1.8.3) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 30.744 | 30.744 | 2.530 |
High resolution limit [Å] | 2.400 | 7.590 | 2.400 |
Rmerge | 0.056 | 0.032 | 0.198 |
Rmeas | 0.077 | ||
Rpim | 0.039 | 0.022 | 0.143 |
Total number of observations | 79694 | 2658 | 9941 |
Number of reflections | 21165 | ||
<I/σ(I)> | 17.4 | 34.7 | 7 |
Completeness [%] | 95.2 | 97.2 | 86.3 |
Redundancy | 3.8 | 3.7 | 3.6 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 5.5 | 291 | Crystallization buffer was 0.2 M NaCl, 0.1 M Bis-Tris (pH 5.5), 19% PEG3350 |