6KBX
Crystal structure of yedK in complex with ssDNA containing abasic site
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | SSRF BEAMLINE BL19U1 |
| Synchrotron site | SSRF |
| Beamline | BL19U1 |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2019-01-08 |
| Detector | DECTRIS PILATUS3 S 6M |
| Wavelength(s) | 0.979 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 47.092, 44.084, 54.731 |
| Unit cell angles | 90.00, 101.69, 90.00 |
Refinement procedure
| Resolution | 46.115 - 1.221 |
| R-factor | 0.1557 |
| Rwork | 0.155 |
| R-free | 0.16470 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 6kbs |
| RMSD bond length | 0.005 |
| RMSD bond angle | 0.920 |
| Data reduction software | HKL-3000 |
| Data scaling software | SCALEPACK |
| Phasing software | PHASER |
| Refinement software | PHENIX (1.12_2829) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 50.000 | 50.000 | 1.260 |
| High resolution limit [Å] | 1.220 | 2.630 | 1.220 |
| Rmerge | 0.091 | 0.065 | 0.619 |
| Rmeas | 0.098 | 0.071 | 0.691 |
| Rpim | 0.038 | 0.027 | 0.299 |
| Total number of observations | 416830 | ||
| Number of reflections | 64468 | 6663 | 6072 |
| <I/σ(I)> | 5.1 | ||
| Completeness [%] | 98.8 | 99.5 | 93.6 |
| Redundancy | 6.5 | 6.8 | 4.6 |
| CC(1/2) | 0.995 | 0.676 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | EVAPORATION | 293 | 0.2 M sodium formate, 20% PEG3350 |
