5RYB
INPP5D PanDDA analysis group deposition -- Crystal Structure of the phosphatase and C2 domains of SHIP1 in complex with Z927400026
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 | 2019-10-25 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.91589 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 62.326, 79.095, 89.210 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 59.180 - 1.550 |
R-factor | 0.1857 |
Rwork | 0.184 |
R-free | 0.21580 |
Structure solution method | FOURIER SYNTHESIS |
Starting model (for MR) | 6xy7 |
RMSD bond length | 0.007 |
RMSD bond angle | 1.447 |
Data reduction software | XDS |
Data scaling software | Aimless (0.7.4) |
Phasing software | REFMAC |
Refinement software | REFMAC (5.8.0238) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 59.180 | 59.180 | 1.630 |
High resolution limit [Å] | 1.550 | 4.890 | 1.550 |
Rmerge | 0.218 | 0.067 | 2.192 |
Rmeas | 0.237 | 0.073 | 2.397 |
Rpim | 0.092 | 0.029 | 0.960 |
Total number of observations | 381313 | 13891 | 57834 |
Number of reflections | 58271 | ||
<I/σ(I)> | 6 | 18.8 | 0.9 |
Completeness [%] | 89.6 | 100 | 100 |
Redundancy | 6.5 | 6.1 | 6.2 |
CC(1/2) | 0.994 | 0.996 | 0.422 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 6.5 | 293 | 30 mM sodium nitrate, 30 mM dibasic sodium phosphate, 30 mM ammonium sulfate, 100 mM MES/imidazole, pH 6.5, 20% PEG500 MME, 10% PEG20000 |