7LIO
X-ray structure of SPOP MATH domain (S119D) in complex with a 53BP1 peptide
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 19-BM |
Synchrotron site | APS |
Beamline | 19-BM |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2019-02-15 |
Detector | ADSC QUANTUM 210r |
Wavelength(s) | 0.9794 |
Spacegroup name | P 41 21 2 |
Unit cell lengths | 103.592, 103.592, 130.149 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 48.650 - 3.010 |
R-factor | 0.233 |
Rwork | 0.228 |
R-free | 0.27660 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 7lin |
RMSD bond length | 0.006 |
RMSD bond angle | 0.981 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | PHENIX (1.16_3549) |
Refinement software | PHENIX (1.16_3549) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 48.650 | 3.110 |
High resolution limit [Å] | 3.010 | 3.010 |
Rmerge | 0.142 | 2.095 |
Rmeas | 0.145 | 2.130 |
Rpim | 0.026 | 0.372 |
Number of reflections | 14508 | 1368 |
<I/σ(I)> | 33.55 | 2.59 |
Completeness [%] | 98.9 | |
Redundancy | 31.5 | |
CC(1/2) | 1.000 | 0.740 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 295 | SPOP MATH (S119D) was at a concentration of 20 mg/ml with a 1:5 protein:53BP1 peptide molar ratio. Crystals were grown by the hanging drop method, mixing 2 ul of the protein sample in 20 mM Tris-HCl, pH 7.6, 150 mM NaCl, 5 mM DTT and 2 ul of the reservoir solution for the drop. The reservoir solution was 0.5 ml of 2 M (NH4)2SO4. |