4DWW
Crystal Structure of Nattokinase from Bacillus subtilis natto
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SPRING-8 BEAMLINE BL44XU |
Synchrotron site | SPring-8 |
Beamline | BL44XU |
Temperature [K] | 100 |
Detector technology | CCD |
Detector | BRUKER SMART 6500 |
Wavelength(s) | 0.9 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 74.293, 49.899, 56.338 |
Unit cell angles | 90.00, 95.24, 90.00 |
Refinement procedure
Resolution | 41.369 - 1.740 |
R-factor | 0.1366 |
Rwork | 0.133 |
R-free | 0.19870 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 1scj |
RMSD bond length | 0.006 |
RMSD bond angle | 0.974 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | AMoRE |
Refinement software | PHENIX ((phenix.refine: 1.6.4_486)) |
Data quality characteristics
Overall | |
Low resolution limit [Å] | 50.000 |
High resolution limit [Å] | 1.740 |
Number of reflections | 14847 |
Completeness [%] | 69.8 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7.5 | 293 | 6.4mg/ml Nattokinase, 50mM Tris HCl, 50mM HEPES, 10% PEG 8000, 8% ethylene glycol, 5mM CaCl2, 100mM NaCl, 2mM PMSF, 4mM Pefabloc SC, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |