7QL7
Crystal structure of YTHDF1 YTH domain in complex with the ebsulfur derivative compound 9
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 | 119.854, 119.854, 78.306 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 44.231 - 2.300 |
| R-factor | 0.1935 |
| Rwork | 0.191 |
| R-free | 0.23450 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 4rci |
| RMSD bond length | 0.008 |
| RMSD bond angle | 1.019 |
| 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] | 65.550 | 65.550 | 2.390 |
| High resolution limit [Å] | 2.300 | 8.610 | 2.300 |
| Rmerge | 0.081 | 0.029 | 1.857 |
| Rmeas | 0.083 | 0.029 | 1.901 |
| Rpim | 0.017 | 0.007 | 0.405 |
| Total number of observations | 630167 | 10512 | 58080 |
| Number of reflections | 25950 | 585 | 2670 |
| <I/σ(I)> | 26 | 86.9 | 2 |
| Completeness [%] | 100.0 | 99.8 | 100 |
| Redundancy | 24.3 | 18 | 21.8 |
| CC(1/2) | 1.000 | 1.000 | 0.696 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 9.5 | 277 | 6% PEG3350, 0.2 M KSCN |
