7VS4
Crystal structure of PacII_M1M2S-DNA(m6A)-SAH complex
Experimental procedure
Experimental method | MAD |
Source type | SYNCHROTRON |
Source details | SSRF BEAMLINE BL18U1 |
Synchrotron site | SSRF |
Beamline | BL18U1 |
Temperature [K] | 80 |
Detector technology | PIXEL |
Collection date | 2021-10-03 |
Detector | DECTRIS EIGER R 4M |
Wavelength(s) | 0.979 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 109.095, 121.668, 129.753 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 49.170 - 2.550 |
R-factor | 0.1835 |
Rwork | 0.181 |
R-free | 0.23680 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 7vru |
RMSD bond length | 0.008 |
RMSD bond angle | 0.991 |
Data reduction software | HKL-2000 (v1.0) |
Data scaling software | HKL-2000 |
Phasing software | PHENIX (1.19.2_4158) |
Refinement software | PHENIX (1.20.1_4487) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 49.170 | 2.641 |
High resolution limit [Å] | 2.550 | 2.550 |
Rmerge | 0.024 | 0.319 |
Rmeas | 0.033 | 0.435 |
Rpim | 0.023 | 0.319 |
Number of reflections | 56313 | 5361 |
<I/σ(I)> | 18.54 | 2.71 |
Completeness [%] | 98.8 | |
Redundancy | 1.6 | |
CC(1/2) | 0.998 | 1.000 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 293 | 0.15 M di-ammonium hydrogen phosphate, 25% PEG 3350, 0.2M Li2SO4, 0.1 M Tris pH 8.5, 20% PEG 3350 (another condition) |