7QKN
Crystal structure of YTHDF1 YTH domain in complex with the ebsulfur derivative compound 7
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | ELETTRA BEAMLINE 11.2C |
| Synchrotron site | ELETTRA |
| Beamline | 11.2C |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2021-09-15 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 0.9999 |
| Spacegroup name | P 43 21 2 |
| Unit cell lengths | 119.749, 119.749, 78.705 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 44.276 - 2.150 |
| R-factor | 0.1831 |
| Rwork | 0.182 |
| R-free | 0.21120 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 4rci |
| RMSD bond length | 0.008 |
| RMSD bond angle | 0.974 |
| Data reduction software | XDS |
| Data scaling software | Aimless (0.7.4) |
| Phasing software | PHASER |
| Refinement software | PHENIX (1.11.1) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 119.750 | 119.750 | 2.210 |
| High resolution limit [Å] | 2.150 | 9.120 | 2.150 |
| Rmerge | 0.104 | 0.033 | 1.666 |
| Rmeas | 0.106 | 0.034 | 1.711 |
| Rpim | 0.022 | 0.008 | 0.382 |
| Total number of observations | 760676 | 8890 | 50441 |
| Number of reflections | 31749 | 506 | 2558 |
| <I/σ(I)> | 21.7 | 69.6 | 2 |
| Completeness [%] | 100.0 | 99.8 | 100 |
| Redundancy | 24 | 17.6 | 19.7 |
| CC(1/2) | 1.000 | 1.000 | 0.697 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 9.5 | 277 | 6% PEG3350, 0.2 M KSCN |
