+Open data
-Basic information
Entry | Database: PDB / ID: 5mjx | ||||||||||||||||||||
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Title | 2'F-ANA/DNA Chimeric TBA Quadruplex structure | ||||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / 2'F-ANA/DNA TBA Structure / Structure from MOLMOL | Function / homology | DNA / DNA (> 10) | Function and homology information Biological species | synthetic construct (others) | Method | SOLUTION NMR / molecular dynamics | Authors | Lietard, J. / Abou Assi, H. / Gomez-Pinto, I. / Gonzalez, C. / Somoza, M.M. / Damha, M.J. | Citation | Journal: Nucleic Acids Res. / Year: 2017 | Title: Mapping the affinity landscape of Thrombin-binding aptamers on 2 F-ANA/DNA chimeric G-Quadruplex microarrays. Authors: Lietard, J. / Abou Assi, H. / Gomez-Pinto, I. / Gonzalez, C. / Somoza, M.M. / Damha, M.J. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5mjx.cif.gz | 99.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5mjx.ent.gz | 80.8 KB | Display | PDB format |
PDBx/mmJSON format | 5mjx.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mj/5mjx ftp://data.pdbj.org/pub/pdb/validation_reports/mj/5mjx | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: DNA chain | Mass: 4761.042 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 1.0 mg/mL DNA (5'-D(*GP*GP*(FT)P*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3'), 90% H2O/10% D2O Label: 1H_sample / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 1.0 mg/mL Component: DNA (5'-D(*GP*GP*(FT)P*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3') Isotopic labeling: natural abundance |
Sample conditions | Details: 10mM NaPi, 25mM KCl / Ionic strength: 10mM NaPi, 25mM KCl mM / Label: condicions_1 / pH: 7 / Pressure: 1 atm / Temperature: 279.6 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 1 | |||||||||||||||
NMR representative | Selection criteria: minimized average structure | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 15 / Conformers submitted total number: 10 |