2RDJ
Snapshots of a Y-family DNA polymerase in replication: Dpo4 in apo and binary/ternary complex forms
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | ROTATING ANODE |
Source details | RIGAKU RU300 |
Temperature [K] | 100 |
Detector technology | IMAGE PLATE |
Detector | MAR scanner 345 mm plate |
Wavelength(s) | 1.5418 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 97.993, 102.510, 106.109 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 24.110 - 2.200 |
R-factor | 0.221 |
Rwork | 0.210 |
R-free | 0.25600 |
Starting model (for MR) | 1jx4 |
RMSD bond length | 0.012 |
RMSD bond angle | 1.502 |
Data reduction software | DENZO |
Data scaling software | SCALEPACK |
Refinement software | REFMAC (5.2.0005) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 30.000 | 2.240 |
High resolution limit [Å] | 2.200 | 2.200 |
Rmerge | 0.055 | 0.360 |
Number of reflections | 51948 | |
<I/σ(I)> | 18.1 | |
Completeness [%] | 97.5 | 99.7 |
Redundancy | 2.8 | 2.1 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | 7 | 294 | 10-15% PEG3350, 0.2M calcium acetate, 0.1M HEPES pH 7.0, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 294K |
Crystallization Reagents
ID | crystal ID | solution ID | reagent name | concentration | details |
1 | 1 | 1 | PEG3350 | ||
2 | 1 | 1 | calcium acetate | ||
3 | 1 | 1 | HEPES | ||
4 | 1 | 1 | glycerol | ||
5 | 1 | 2 | PEG3350 | ||
6 | 1 | 2 | calcium acetate | ||
7 | 1 | 2 | HEPES | ||
8 | 1 | 2 | glycerol |