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Yorodumi- PDB-7o1h: Hybrid-2R quadruplex-duplex with (-p-p-l) topology and 3 syn residues -
+Open data
-Basic information
Entry | Database: PDB / ID: 7o1h | ||||||
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Title | Hybrid-2R quadruplex-duplex with (-p-p-l) topology and 3 syn residues | ||||||
Components | DNA (31-MER) | ||||||
Keywords | DNA / Quadruplex-Duplex Hybrid / Hybrid topology | ||||||
Function / homology | DNA / DNA (> 10) Function and homology information | ||||||
Biological species | synthetic construct (others) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Mohr, S. / Vianney, Y.M. / Weisz, K. | ||||||
Funding support | Germany, 1items
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Citation | Journal: Chemistry / Year: 2021 Title: Expanding the Topological Landscape by a G-Column Flip of a Parallel G-Quadruplex. Authors: Mohr, S. / Jana, J. / Vianney, Y.M. / Weisz, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7o1h.cif.gz | 198.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7o1h.ent.gz | 162.5 KB | Display | PDB format |
PDBx/mmJSON format | 7o1h.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7o1h_validation.pdf.gz | 330 KB | Display | wwPDB validaton report |
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Full document | 7o1h_full_validation.pdf.gz | 375.9 KB | Display | |
Data in XML | 7o1h_validation.xml.gz | 8.8 KB | Display | |
Data in CIF | 7o1h_validation.cif.gz | 14 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/o1/7o1h ftp://data.pdbj.org/pub/pdb/validation_reports/o1/7o1h | HTTPS FTP |
-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: 9873.078 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
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Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution / Contents: 0.3 mM no DNA (31-MER), 90% H2O/10% D2O / Details: 10 mM potassium phosphate buffer pH 7 / Label: dupATBr13 / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.3 mM / Component: DNA (31-MER) / Isotopic labeling: no |
Sample conditions | Details: 10 mM potassium phosphate, pH 7.0 / Ionic strength: 10 mM / Label: cond1 / pH: 7.0 / Pressure: 1 atm / Temperature: 303 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE NEO / Manufacturer: Bruker / Model: AVANCE NEO / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 4 | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 10 / Conformers submitted total number: 10 |