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Yorodumi- PDB-2mb4: Solution structure of a stacked dimeric G-quadruplex formed by a ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2mb4 | ||||||||||||||||||||
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Title | Solution structure of a stacked dimeric G-quadruplex formed by a segment of the human CEB1 minisatellite | ||||||||||||||||||||
Components | DNA_(5'-D(*Keywords | DNA / G-quadruplex / Stacking / CEB1 / minisatellite | Function / homology | DNA / DNA (> 10) | Function and homology information Method | SOLUTION NMR / DGSA-distance geometry simulated annealing, molecular dynamics | Model details | lowest energy, model1 | Authors | Adrian, M. / Ang, D.J. / Lech, C. / Heddi, B. / Nicolas, A. / Phan, A.T. | Citation | Journal: J.Am.Chem.Soc. / Year: 2014 | Title: Structure and Conformational Dynamics of a Stacked Dimeric G-Quadruplex Formed by the Human CEB1 Minisatellite. Authors: Adrian, M. / Ang, D.J. / Lech, C.J. / Heddi, B. / Nicolas, A. / 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 | 2mb4.cif.gz | 220 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2mb4.ent.gz | 189.8 KB | Display | PDB format |
PDBx/mmJSON format | 2mb4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mb/2mb4 ftp://data.pdbj.org/pub/pdb/validation_reports/mb/2mb4 | 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: 5807.738 Da / Num. of mol.: 2 / Source method: obtained synthetically |
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-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 | Ionic strength: 100 / pH: 7 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: DGSA-distance geometry simulated annealing, molecular dynamics Software ordinal: 1 | ||||||||||||
NMR constraints | NOE constraints total: 1092 / NOE intraresidue total count: 598 / NOE long range total count: 220 / NOE sequential total count: 274 / Hydrogen bond constraints total count: 96 | ||||||||||||
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 |