1V3P
Crystal structure of d(GCGAGAGC): the DNA octaplex structure with I-motif of G-quartet
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | PHOTON FACTORY BEAMLINE BL-18B |
Synchrotron site | Photon Factory |
Beamline | BL-18B |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2000-11-11 |
Detector | ADSC QUANTUM 4 |
Wavelength(s) | 1.0 |
Spacegroup name | I 2 2 2 |
Unit cell lengths | 36.180, 36.380, 63.120 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 9.000 - 2.300 |
Rwork | 0.234 |
R-free | 0.26500 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 1v3n |
RMSD bond length | 0.005 |
RMSD bond angle | 0.900 |
Data reduction software | CrystalClear ((MSC/RIGAKU)) |
Data scaling software | SCALA |
Phasing software | AMoRE |
Refinement software | CNS (1.0) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 20.000 | 2.380 |
High resolution limit [Å] | 2.300 | 2.300 |
Rmerge | 0.084 | 0.240 |
Number of reflections | 1980 | |
<I/σ(I)> | 7.1 | 2.4 |
Completeness [%] | 98.4 | 99 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7 | 277 | 2-methyl-2,4-pentanediol, spermine tetrahydrochloride, sodium chloride, potassium chloride, sodium cacodylate , pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
Crystallization Reagents
ID | crystal ID | solution ID | reagent name | concentration | details |
1 | 1 | 1 | 2-methyl-2,4-pentanediol | ||
2 | 1 | 1 | spermine tetrahydrochloride | ||
3 | 1 | 1 | sodium chloride | ||
4 | 1 | 1 | potassium chloride | ||
5 | 1 | 1 | sodium cacodylate | ||
6 | 1 | 2 | sodium chloride | ||
7 | 1 | 2 | potassium chloride | ||
8 | 1 | 2 | sodium cacodylate |