6VTE
Naegleria gruberi RNA Ligase K170M mutant with AMP and Mn
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 | 2015-10-14 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.9792 |
Spacegroup name | P 32 |
Unit cell lengths | 54.916, 54.916, 102.244 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 27.700 - 2.100 |
R-factor | 0.1955 |
Rwork | 0.189 |
R-free | 0.25310 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5cot |
Data reduction software | HKL-2000 |
Data scaling software | SCALEPACK |
Phasing software | PHENIX |
Refinement software | PHENIX (1.17.1_3660) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 30.000 | 30.000 | 2.140 |
High resolution limit [Å] | 2.100 | 5.690 | 2.100 |
Rmerge | 0.093 | 0.058 | 0.247 |
Rmeas | 0.116 | 0.072 | 0.341 |
Rpim | 0.068 | 0.042 | 0.234 |
Number of reflections | 28362 | 970 | 483 |
<I/σ(I)> | 10.8 | ||
Completeness [%] | 86.6 | 94.8 | 46.9 |
Redundancy | 2.2 | 2.7 | 1.3 |
CC(1/2) | 0.925 | 0.779 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 293 | NgRnlK170M (9.8 mg/ml) was adjusted to 5 mM AMP and 2 mM MnCl2 and incubated for 15 min on ice before aliquots of the protein solution (1 ul) were mixed on a coverslip with an equal volume of precipitant solution containing 0.1 M HEPES pH 6.5, 30% PEG6000 |