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Yorodumi- PDB-230d: SOLUTION STRUCTURES OF UNIMOLECULAR QUADRUPLEXES FORMED BY OLIGON... -
+Open data
-Basic information
Entry | Database: PDB / ID: 230d | ||||||
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Title | SOLUTION STRUCTURES OF UNIMOLECULAR QUADRUPLEXES FORMED BY OLIGONUCLEOTIDES CONTAINING OXYTRICHA TELOMERE REPEATS | ||||||
Components | QUADRUPLEXES DNA | ||||||
Keywords | DNA / QUADRUPLEX / OXYTRICHA TELOMERE REPEAT | ||||||
Function / homology | DNA / DNA (> 10) Function and homology information | ||||||
Method | SOLUTION NMR / SIMULATED ANNEALING, MATRIX RELAXATION | ||||||
Authors | Smith, F.W. / Schultze, P. / Feigon, J. | ||||||
Citation | Journal: Structure / Year: 1995 Title: Solution structures of unimolecular quadruplexes formed by oligonucleotides containing Oxytricha telomere repeats. Authors: Smith, F.W. / Schultze, P. / Feigon, J. #1: Journal: Nature / Year: 1992 Title: Quadruplex Structure of Oxytricha Telomeric DNA Oligonucleotides Authors: Smith, F.W. / Feigon, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 230d.cif.gz | 128.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb230d.ent.gz | 105 KB | Display | PDB format |
PDBx/mmJSON format | 230d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/30/230d ftp://data.pdbj.org/pub/pdb/validation_reports/30/230d | HTTPS FTP |
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-Related structure data
Similar structure data |
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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: 8801.531 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: CHEMICALLY SYNTHESIZED / Keywords: DEOXYRIBONUCLEIC ACID |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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-Sample preparation
Details | Solvent system: H2O/D2O |
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Sample | Conc.: 0.002 M / Component: SODIUM CHLORIDE |
Sample conditions | Ionic strength: 0.1M / pH: 6.0 / Temperature units: K |
Crystal grow | *PLUS Method: other / Details: NMR |
-Processing
Software |
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NMR software | Name: X-PLOR / Version: 3.1 / Developer: BRUNGER / Classification: refinement | ||||||||||||
Refinement | Method: SIMULATED ANNEALING, MATRIX RELAXATION / Software ordinal: 1 Details: REFINEMENT PROCEDURE STEP (1) SUBSTRUCTURE EMBEDDING ON 80 STRUCTURES STEP (2) TEMPLATE FITTING AND REGULARIZATION BY SIMULATED ANNEALING (80 STRUCTURES) STEP (3) SIMULATED ANNEALING AND ...Details: REFINEMENT PROCEDURE STEP (1) SUBSTRUCTURE EMBEDDING ON 80 STRUCTURES STEP (2) TEMPLATE FITTING AND REGULARIZATION BY SIMULATED ANNEALING (80 STRUCTURES) STEP (3) SIMULATED ANNEALING AND ENERGY MINIMIZATION (80 STRUCTURES) STEP (4) RELAXATION MATRIX REFINEMENT ON THE BEST 7 OF 80 STRUCTURES | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 80 / Conformers submitted total number: 7 |