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- PDB-187d: HYDRATION PATTERNS AND INTERMOLECULAR INTERACTIONS IN A-DNA CRYST... -
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Open data
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Basic information
Entry | Database: PDB / ID: 187d | ||||||||||||||||||
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Title | HYDRATION PATTERNS AND INTERMOLECULAR INTERACTIONS IN A-DNA CRYSTAL STRUCTURES. IMPLICATIONS FOR DNA RECOGNITION | ||||||||||||||||||
![]() | DNA (5'-D(*![]() DNA / A-DNA / DOUBLE HELIX | Function / homology | DNA | ![]() Method | ![]() ![]() Eisenstein, M. / Shakked, Z. | ![]() ![]() Title: Hydration patterns and intermolecular interactions in A-DNA crystal structures. Implications for DNA recognition. Authors: Eisenstein, M. / Shakked, Z. #1: ![]() Title: The Crystal Structure of d(CCCCGGGG): A New A-Form Variant with an Extended Backbone Conformation Authors: Haran, T.E. / Shakked, Z. / Wang, A.H.-J. / Rich, A. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 12.3 KB | Display | ![]() |
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PDB format | ![]() | 7.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 312 KB | Display | ![]() |
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Full document | ![]() | 312 KB | Display | |
Data in XML | ![]() | 1.1 KB | Display | |
Data in CIF | ![]() | 1.5 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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1 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: DNA chain | Mass: 2428.593 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 48.81 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion / pH: 7 / Details: pH 7.00, VAPOR DIFFUSION | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS pH: 7 / Method: unknownDetails: Wang, A. H.-J., (1982) Proc. Nat. Acad. Sci. USA., 79, 3968. | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 288 K |
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Detector | Type: NICOLET / Detector: DIFFRACTOMETER |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.25 Å |
Reflection | *PLUS Highest resolution: 2.25 Å |
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Processing
Software | Name: NUCLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.25→8 Å / σ(F): 2 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.25→8 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.25 Å / Lowest resolution: 8 Å / σ(F): 2 / Rfactor obs: 0.134 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |