5AY8
Crystal structure of human nucleosome containing H3.Y
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | PHOTON FACTORY BEAMLINE BL-17A |
| Synchrotron site | Photon Factory |
| Beamline | BL-17A |
| Temperature [K] | 100 |
| Detector technology | CCD |
| Collection date | 2013-10-26 |
| Detector | ADSC QUANTUM 270 |
| Wavelength(s) | 0.98 |
| Spacegroup name | P 21 21 21 |
| Unit cell lengths | 101.522, 101.922, 175.736 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 48.945 - 2.800 |
| R-factor | 0.2035 |
| Rwork | 0.201 |
| R-free | 0.24880 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 3av2 |
| RMSD bond length | 0.011 |
| RMSD bond angle | 1.301 |
| Data reduction software | HKL-2000 (705b) |
| Data scaling software | HKL-2000 |
| Phasing software | PHASER |
| Refinement software | PHENIX ((phenix.refine: 1.9_1692)) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 50.000 | 50.000 | 2.900 |
| High resolution limit [Å] | 2.800 | 6.030 | 2.800 |
| Rmerge | 0.096 | 0.053 | 0.434 |
| Rmeas | 0.108 | 0.058 | 0.512 |
| Rpim | 0.048 | 0.024 | 0.265 |
| Total number of observations | 184460 | ||
| Number of reflections | 43676 | ||
| <I/σ(I)> | 11 | ||
| Completeness [%] | 95.5 | 95.5 | 92.8 |
| Redundancy | 4.2 | 5.2 | 3.1 |
| CC(1/2) | 0.998 | 0.292 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 4.6 | 293 | sodium acetate, manganese chloride, 2-propanol, trimethylamine N-oxide |
