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Open data
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Basic information
Entry | Database: PDB / ID: 401d | ||||||||||||||||||
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Title | STRUCTURE OF A DNA IN LOW SALT CONDITIONS D(GACCGCGGTC) | ||||||||||||||||||
![]() | DNA (5'-D(*![]() DNA / DNA DOUBLE HELIX | Function / homology | DNA | ![]() Method | ![]() ![]() Luo, M. / Finley, J.B. | ![]() ![]() Title: X-ray crystal structures of half the human papilloma virus E2 binding site: d(GACCGCGGTC). Authors: Finley, J.B. / Luo, M. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 16 KB | Display | ![]() |
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PDB format | ![]() | 9.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 360.2 KB | Display | ![]() |
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Full document | ![]() | 360.2 KB | Display | |
Data in XML | ![]() | 2.5 KB | Display | |
Data in CIF | ![]() | 3 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
#1: DNA chain | Mass: 3045.993 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: 2.68 Å3/Da / Density % sol: 56 % | ||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion / Details: VAPOR DIFFUSION | ||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Details: This particular structure is not described in this paper. | ||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Detector | Type: SIEMENS HI-STAR / Detector: AREA DETECTOR |
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Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.2 Å / Num. obs: 1811 / % possible obs: 82.3 % / Observed criterion σ(I): 3 / Redundancy: 6 % / Rmerge(I) obs: 0.039 |
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Processing
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Refinement | Resolution: 2.2→5 Å / Isotropic thermal model: ISOTROPIC / σ(F): 3
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Refinement step | Cycle: LAST / Resolution: 2.2→5 Å
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Refine LS restraints |
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Xplor file | Serial no: 1 / Param file: PARAM_NDBX_HIGH.DNA / Topol file: TOP_NDBX.DNA |