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Open data
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Basic information
Entry | Database: PDB / ID: 2lyg | |||||||||||||||||||||
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Title | Fuc_TBA | |||||||||||||||||||||
![]() | DNA (5'-D(P*![]() DNA / Carbohydrate-DNA interaction / G-Quadruplex structure | Function / homology | 2-hydroxyethyl 6-deoxy-beta-L-galactopyranoside / DNA / DNA (> 10) | ![]() Method | SOLUTION NMR / molecular dynamics | ![]() Gomez-Pinto, I. / Vengut-Climent, E. / Lucas, R. / Avio, A. / Eritja, R. / Gonzalez-Ibaez, C. / Morales, J. | ![]() ![]() Title: Carbohydrate-DNA interactions at G-quadruplexes: folding and stability changes by attaching sugars at the 5'-end. Authors: Gomez-Pinto, I. / Vengut-Climent, E. / Lucas, R. / Avino, A. / Eritja, R. / Gonzalez, C. / Morales, J.C. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 125.7 KB | Display | ![]() |
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PDB format | ![]() | 101.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 355 KB | Display | ![]() |
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Full document | ![]() | 423.1 KB | Display | |
Data in XML | ![]() | 9 KB | Display | |
Data in CIF | ![]() | 13.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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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: 4743.051 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: Sugar | ChemComp-1CF / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||
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NMR experiment |
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NMR details | Text: The structure was determined using NOE data |
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Sample preparation
Details | Contents: 1 mM DNA (5'-D(P*GP*GP*TP*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3'), 1 mM SUGAR (ALPHA-D-FUCOSE), 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | |||||||||
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Sample |
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Sample conditions | pH: 7.0 / Pressure: ambient / Temperature: 279.6 K |
-NMR measurement
NMR spectrometer |
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Processing
NMR software | Name: ![]() Developer: Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman Classification: refinement |
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Refinement | Method: molecular dynamics / Software ordinal: 1 |
NMR representative | Selection criteria: lowest energy |
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 12 / Conformers submitted total number: 12 |