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Yorodumi- PDB-6tc8: 2'-F-arabinoguanosine and 2'-F-riboguanosine modified hybrid type... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6tc8 | ||||||||||||||||||||||||||||
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Title | 2'-F-arabinoguanosine and 2'-F-riboguanosine modified hybrid type G-quadruplex with V-loop | ||||||||||||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / G-quadruplex / V-loop | Function / homology | DNA / DNA (> 10) | Function and homology information Biological species | synthetic construct (others) | Method | SOLUTION NMR / simulated annealing / molecular dynamics | Authors | Haase, L. / Weisz, K. | Funding support | Germany, 1items |
Citation | Journal: Chem.Commun.(Camb.) / Year: 2020 | Title: Switching the type of V-loop in sugar-modified G-quadruplexes through altered fluorine interactions. Authors: Haase, L. / Weisz, K. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6tc8.cif.gz | 144.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6tc8.ent.gz | 118 KB | Display | PDB format |
PDBx/mmJSON format | 6tc8.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6tc8_validation.pdf.gz | 321.5 KB | Display | wwPDB validaton report |
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Full document | 6tc8_full_validation.pdf.gz | 369.9 KB | Display | |
Data in XML | 6tc8_validation.xml.gz | 7.2 KB | Display | |
Data in CIF | 6tc8_validation.cif.gz | 10.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tc/6tc8 ftp://data.pdbj.org/pub/pdb/validation_reports/tc/6tc8 | HTTPS FTP |
-Related structure data
Related structure data | 6tcgC C: citing same article (ref.) |
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Similar structure data | |
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: 7008.473 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 |
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Sample |
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Sample conditions | Details: 10 mM potassium phosphate buffer / Ionic strength: 20 mM / Label: conditions_1 / pH: 7 / Pressure: 1 atm / Temperature: 298 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 |
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NMR representative | Selection criteria: lowest energy | ||||||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 10 / Conformers submitted total number: 10 |