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Open data
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Basic information
Entry | Database: PDB / ID: 7bfx | |||||||||||||||||||||||||||||||
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Title | deoxyxylose nucleic acid hairpin | |||||||||||||||||||||||||||||||
![]() | dXyNA (5'-D(*![]() DNA / deoxyxylose nucleic acid / chimeric | Function / homology | DNA / DNA (> 10) | ![]() Biological species | ![]() ![]() Method | SOLUTION NMR / molecular dynamics | ![]() Mattelaer, C.-A. / Mohitosh, M. / Smets, L. / Maiti, M. / Schepers, G. / Mattelaer, H.-P. / Rosemeyer, H. / Herdewijn, P. / Lescrinier, E. | Funding support | | ![]()
![]() ![]() Title: Stable Hairpin Structures Formed by Xylose-Based Nucleic Acids. Authors: Mattelaer, C.A. / Maiti, M. / Smets, L. / Maiti, M. / Schepers, G. / Mattelaer, H.P. / Rosemeyer, H. / Herdewijn, P. / Lescrinier, E. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 147.9 KB | Display | ![]() |
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PDB format | ![]() | 104.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 343.3 KB | Display | ![]() |
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Full document | ![]() | 467.2 KB | Display | |
Data in XML | ![]() | 23.5 KB | Display | |
Data in CIF | ![]() | 35.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7bfsC C: citing same article ( |
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Similar structure data | |
Other databases |
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: DNA chain | Mass: 6054.919 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: cruciform ColE1 / Source: (synth.) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Sample state: anisotropic / Type: 2D 1H-1H NOESY |
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Sample preparation
Details | Type: solution / Contents: 1.9 mM oligomer, 100% D2O / Label: 1 / Solvent system: 100% D2O |
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Sample | Conc.: 1.9 mM / Component: oligomer / Isotopic labeling: natural abundance |
Sample conditions | Ionic strength: 0 M / Label: 1 / pH: 6.9 pD / Pressure: 1 atm / Temperature: 283 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE II / Manufacturer: Bruker / Model: AVANCE II / Field strength: 600 MHz |
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Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 4 / Details: explicit solvent | |||||||||||||||
NMR representative | Selection criteria: closest to the average | |||||||||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 100 / Conformers submitted total number: 10 |