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- PDB-222d: INFLUENCE OF COUNTER-IONS ON THE CRYSTAL STRUCTURES OF DNA DECAME... -
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Open data
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Basic information
Entry | Database: PDB / ID: 222d | ||||||||||||||||||
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Title | INFLUENCE OF COUNTER-IONS ON THE CRYSTAL STRUCTURES OF DNA DECAMERS: BINDING OF [CO(NH3)6]3+ AND BA2+ TO A-DNA | ||||||||||||||||||
![]() | DNA/RNA (5'-R(*![]() DNA/RNA / A-DNA/RNA / DOUBLE HELIX / DNA-RNA complex | Function / homology | COBALT HEXAMMINE(III) / DNA/RNA hybrid | ![]() Method | ![]() ![]() Gao, Y.-G. / Robinson, H. / Van Boom, J.H. / Wang, A.H.-J. | ![]() ![]() Title: Influence of counter-ions on the crystal structures of DNA decamers: binding of [Co(NH3)6]3+ and Ba2+ to A-DNA. Authors: Gao, Y.G. / Robinson, H. / van Boom, J.H. / Wang, A.H. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 24.1 KB | Display | ![]() |
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PDB format | ![]() | 14.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 338.6 KB | Display | ![]() |
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Full document | ![]() | 350.9 KB | Display | |
Data in XML | ![]() | 3.1 KB | Display | |
Data in CIF | ![]() | 4.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: DNA/RNA hybrid | Mass: 3077.005 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.07 Å3/Da / Density % sol: 40.57 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion / pH: 6.5 / Details: pH 6.50, VAPOR DIFFUSION | |||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Method: unknown | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Ambient temp details: ROOM TEMPERATURE |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 1.9 Å / Num. obs: 1274 |
Reflection | *PLUS Num. obs: 3720 / Rmerge(I) obs: 0.064 |
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Processing
Software | Name: NUCLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Highest resolution: 1.9 Å / σ(F): 4 /
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Refinement step | Cycle: LAST / Highest resolution: 1.9 Å
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Refine LS restraints |
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Refinement | *PLUS σ(F): 4 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: n_bond_d / Dev ideal: 0.016 |