6IIE
Crystal structure of human diacylglycerol kinase alpha EF-hand domains bound to Ca2+
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | PHOTON FACTORY BEAMLINE BL-1A |
Synchrotron site | Photon Factory |
Beamline | BL-1A |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2017-11-27 |
Detector | DECTRIS EIGER X 4M |
Wavelength(s) | 1.1 |
Spacegroup name | P 32 2 1 |
Unit cell lengths | 58.190, 58.190, 61.120 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 38.882 - 2.142 |
R-factor | 0.1879 |
Rwork | 0.185 |
R-free | 0.23760 |
Structure solution method | SAD |
RMSD bond length | 0.013 |
RMSD bond angle | 1.315 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | AutoSol |
Refinement software | PHENIX (1.12_2829) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 38.880 | 2.270 |
High resolution limit [Å] | 2.142 | 6.350 | 2.142 |
Rmerge | 0.083 | 0.055 | 0.661 |
Rmeas | 0.059 | 0.698 | |
Rpim | 0.028 | ||
Number of reflections | 6876 | 300 | 1079 |
<I/σ(I)> | 15.13 | 35.82 | 2.91 |
Completeness [%] | 99.9 | 99.7 | 99.2 |
Redundancy | 9.7 | 8.697 | 9.88 |
CC(1/2) | 0.998 | 0.996 | 0.881 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 7 | 296 | 0.1 M HEPES, 1.0 M succinic acid, 2 % PEG monomethyl ether 2000, 10 % glycerol |
1 | VAPOR DIFFUSION, SITTING DROP | 7 | 296 | 0.1 M HEPES, 1.0 M succinic acid, 2 % PEG monomethyl ether 2000, 10 % glycerol |