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- PDB-6m0c: Solution NMR Structures of DNA minidumbbell formed by 5'-CTTG CATG-3'. -
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Open data
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Basic information
Entry | Database: PDB / ID: 6m0c | ||||||||||||||||||||
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Title | Solution NMR Structures of DNA minidumbbell formed by 5'-CTTG CATG-3'. | ||||||||||||||||||||
![]() | DNA (5'-D(*![]() DNA / DNA structure / minidumbbell / type II tetraloop | Function / homology | DNA | ![]() Biological species | ![]() Method | SOLUTION NMR / simulated annealing | ![]() Ngai, C.K. / Guo, P. | ![]() ![]() Title: High-Resolution Structures of DNA Minidumbbells Comprising Type II Tetraloops with a Purine Minor Groove Residue. Authors: Ngai, C.K. / Lam, S.L. / Lee, H.K. / Guo, P. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 93.1 KB | Display | ![]() |
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PDB format | ![]() | 65.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Summary document | ![]() | 314 KB | Display | ![]() |
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Full document | ![]() | 405.9 KB | Display | |
Data in XML | ![]() | 4.9 KB | Display | |
Data in CIF | ![]() | 7.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6m0bC C: citing same article ( |
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Similar structure data | |
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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: 2417.603 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() | ||
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#2: Chemical | ChemComp-NA / 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: 0.5 mM DNA (5'-D(*CP*TP*TP*GP*CP*AP*TP*G)-3'), 1 mM sodium phosphate, 0.02 mM DSS, 99.96% D2O Label: MDB_A6 / Solvent system: 99.96% D2O | ||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 1 NaPi mM / Label: Normal condition / pH: 7.0 / Pressure: 1 atm / Temperature: 278 K |
-NMR measurement
NMR spectrometer |
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Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 500 / Conformers submitted total number: 20 |