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Yorodumi- PDB-1dn9: STRUCTURE OF AN ALTERNATING-B DNA HELIX AND ITS RELATIONSHIP TO A... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1dn9 | ||||||||||||||||||
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Title | STRUCTURE OF AN ALTERNATING-B DNA HELIX AND ITS RELATIONSHIP TO A-TRACT DNA | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / B-DNA / DOUBLE HELIX | Function / homology | DNA / DNA (> 10) | Function and homology information Method | X-RAY DIFFRACTION / Resolution: 2.2 Å | Authors | Yoon, C. / Dickerson, R.E. | Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 1988 | Title: Structure of an alternating-B DNA helix and its relationship to A-tract DNA. Authors: Yoon, C. / Prive, G.G. / Goodsell, D.S. / Dickerson, R.E. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1dn9.cif.gz | 23.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1dn9.ent.gz | 14.4 KB | Display | PDB format |
PDBx/mmJSON format | 1dn9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/dn/1dn9 ftp://data.pdbj.org/pub/pdb/validation_reports/dn/1dn9 | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: DNA chain | Mass: 3662.404 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.08 Å3/Da / Density % sol: 40.82 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion / Details: VAPOR DIFFUSION | |||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Method: vapor diffusion | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 279 K |
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Detector | Type: SDMS / Detector: AREA DETECTOR |
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2.2→8 Å / Num. obs: 2994 |
-Processing
Software | Name: X-PLOR / Classification: refinement | ||||||||||||
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Refinement | Resolution: 2.2→8 Å / σ(F): 0.5 /
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Refine Biso |
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Refinement step | Cycle: LAST / Resolution: 2.2→8 Å
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Refinement | *PLUS σ(F): 0.5 / Highest resolution: 2.2 Å / Lowest resolution: 8 Å / Rfactor obs: 0.189 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS | ||||||||||||
Refine LS restraints | *PLUS Type: x_bond_d / Dev ideal: 0.718 |