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Yorodumi- PDB-2lk7: Monomer-dimer equilibrium for 5'-5' stacking of propeller-type pa... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2lk7 | ||||||||||||||||||||
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Title | Monomer-dimer equilibrium for 5'-5' stacking of propeller-type parallel-stranded G-quadruplexes: NMR structural study | ||||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA / G-quadruplex / propeller type / monomer | Function / homology | DNA / DNA (> 10) | Function and homology information Method | SOLUTION NMR / DGSA-distance geometry simulated annealing | Model details | lowest energy, model 1 | Authors | Do, N.Q. / Phan, A.T. | Citation | Journal: Chemistry / Year: 2012 | Title: Monomer-Dimer Equilibrium for the 5'-5' Stacking of Propeller-Type Parallel-Stranded G-Quadruplexes: NMR Structural Study Authors: Do, N.Q. / Phan, A.T. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2lk7.cif.gz | 123.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2lk7.ent.gz | 103.8 KB | Display | PDB format |
PDBx/mmJSON format | 2lk7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lk/2lk7 ftp://data.pdbj.org/pub/pdb/validation_reports/lk/2lk7 | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: DNA chain | Mass: 5730.669 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: 2D 1H-1H NOESY |
-Sample preparation
Details | Contents: 0.5mM DNA-1, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.5 mM / Component: DNA |
Sample conditions | Ionic strength: 16 / pH: 7.0 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AMX / Manufacturer: Bruker / Model: AMX / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: DGSA-distance geometry 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: 100 / Conformers submitted total number: 10 / Representative conformer: 1 |