5QJI
PanDDA analysis group deposition of models with modelled events (e.g. bound ligands) -- Crystal Structure of NUDT5 in complex with Z1899842917
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | DIAMOND BEAMLINE I04-1 |
Synchrotron site | Diamond |
Beamline | I04-1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2018-07-08 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.91587 |
Spacegroup name | P 1 |
Unit cell lengths | 48.980, 59.770, 79.380 |
Unit cell angles | 79.84, 81.43, 75.99 |
Refinement procedure
Resolution | 77.650 - 1.690 |
R-factor | 0.2588 |
Rwork | 0.257 |
R-free | 0.30070 |
Structure solution method | FOURIER SYNTHESIS |
Starting model (for MR) | 6gru |
RMSD bond length | 0.015 |
RMSD bond angle | 1.865 |
Data reduction software | XDS |
Data scaling software | Aimless (0.7.1) |
Phasing software | REFMAC |
Refinement software | REFMAC (5.8.0189) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 77.650 | 77.650 | 1.730 |
High resolution limit [Å] | 1.690 | 7.560 | 1.690 |
Rmerge | 0.048 | 0.040 | 0.643 |
Rmeas | 0.056 | 0.047 | 0.910 |
Rpim | 0.030 | 0.024 | 0.643 |
Total number of observations | 302983 | 3971 | 11594 |
Number of reflections | 92935 | ||
<I/σ(I)> | 12.3 | 53.5 | 0.7 |
Completeness [%] | 97.1 | 98.4 | 95.5 |
Redundancy | 3.3 | 3.7 | 1.7 |
CC(1/2) | 0.998 | 0.996 | 0.638 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 293.15 | 33 % PEG4k, 0.2 MgCl2 and 0.1 M Tris |