8PKB
Staphylococcus aureus endonuclease IV with bound phosphate
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | ESRF BEAMLINE ID23-1 |
Synchrotron site | ESRF |
Beamline | ID23-1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2023-05-01 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.87313 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 38.548, 84.040, 103.344 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 44.000 - 1.900 |
R-factor | 0.1888 |
Rwork | 0.188 |
R-free | 0.21120 |
Structure solution method | MOLECULAR REPLACEMENT |
RMSD bond length | 0.006 |
RMSD bond angle | 0.759 |
Data reduction software | XDS |
Data scaling software | Aimless |
Phasing software | PHASER (2.8.3) |
Refinement software | PHENIX (1.20.1_4487) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 44.000 | 44.000 | 1.980 |
High resolution limit [Å] | 1.900 | 3.790 | 1.900 |
Rmerge | 0.209 | 0.092 | 1.165 |
Rmeas | 0.229 | 2.278 | |
Rpim | 0.093 | ||
Number of reflections | 50721 | 3624 | 3343 |
<I/σ(I)> | 9.7 | 20 | 1.5 |
Completeness [%] | 99.8 | 99.97 | 100 |
Redundancy | 5.9 | 5.49 | 6.14 |
CC(1/2) | 0.991 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 8.5 | 295 | 200 nl protein mixed with 200 nl precipitant Protein: 9 mg/ml in 20 mM Tris-HCl pH 8.0, 150 mM NaCl was mixed with 20 mM phosphate (final concentration). Precipitant: 28% PEG 3350, 250 mM NaCl, 100 mM Tris-HCl pH 8.5 |