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- PDB-2o83: The Structure of Tandem GA RNA Pairs When Flanking Pairs are isoG... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2o83 | ||||||||||||||||||
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Title | The Structure of Tandem GA RNA Pairs When Flanking Pairs are isoG-isoC Pairs | ||||||||||||||||||
![]() | 5'-R(*![]() RNA / Thermodynamics / secondary structure prediction / imino GA pair / isoguanosine / isocytidine | Function / homology | RNA | ![]() Method | SOLUTION NMR / simulated annealing, molecular dynamics | ![]() Kennedy, S.D. / Turner, D.H. | ![]() ![]() Title: Stacking Effects on Local Structure in RNA: Changes in the Structure of Tandem GA Pairs when Flanking GC Pairs are Replaced by isoG-isoC Pairs Authors: Chen, G. / Kierzek, R. / Yildirim, I. / Krugh, T.R. / Turner, D.H. / Kennedy, S.D. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 208.2 KB | Display | ![]() |
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PDB format | ![]() | 175.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Summary document | ![]() | 326.7 KB | Display | ![]() |
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Full document | ![]() | 454.4 KB | Display | |
Data in XML | ![]() | 6.8 KB | Display | |
Data in CIF | ![]() | 11.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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: RNA chain | Mass: 2909.823 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 | Contents: 80 mM NaCl, 10 mM sodium phosphate, 0.5 mM Na2EDTA, pH 7.1, 0.7mM RNA duplex concentration, 90% H2O, 10% D2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | pH: 7.1 / Temperature: 278 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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Processing
NMR software |
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Refinement | Method: simulated annealing, molecular dynamics / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations,structures with the lowest energy Conformers calculated total number: 20 / Conformers submitted total number: 18 |