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Open data
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Basic information
Entry | Database: PDB / ID: 2kp3 | ||||||
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Title | Structure of ANA-RNA hybrid duplex | ||||||
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![]() | RNA / ANA / arabinonucleic acid / nucleic acid structure / NMR/MD/TI / hybrid duplex | ||||||
Function / homology | RNA![]() | ||||||
Method | SOLUTION NMR / molecular dynamics, matrix relaxation | ||||||
Model details | lowest energy, model 1 | ||||||
![]() | Gonzalez, C. / Martn-Pintado, N. / Watts, J. / Gomez-Pinto, I. / Dhama, M. / Orozco, M. / Schwartzentruber, J. / Portella, G. | ||||||
![]() | ![]() Title: Differential stability of 2'F-ANA*RNA and ANA*RNA hybrid duplexes: roles of structure, pseudohydrogen bonding, hydration, ion uptake and flexibility. Authors: Watts, J.K. / Martin-Pintado, N. / Gomez-Pinto, I. / Schwartzentruber, J. / Portella, G. / Orozco, M. / Gonzalez, C. / Damha, M.J. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 133.2 KB | Display | ![]() |
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PDB format | ![]() | 108.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 337.7 KB | Display | ![]() |
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Full document | ![]() | 424.3 KB | Display | |
Data in XML | ![]() | 10.2 KB | Display | |
Data in CIF | ![]() | 13.2 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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1 |
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NMR ensembles |
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Components
#1: RNA chain | Mass: 3201.957 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: RNA chain | Mass: 3121.908 Da / Num. of mol.: 1 / Source method: obtained synthetically |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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Sample preparation
Details | Contents: 0.8 mM ANA/RNA hybrid duplex-1, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.8 mM / Component: ANA/RNA hybrid duplex-1 |
Sample conditions | pH: 7 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker Advance / Manufacturer: Bruker / Model: Advance / Field strength: 600 MHz |
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Processing
NMR software |
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Refinement | Method: molecular dynamics, matrix relaxation / Software ordinal: 1 | ||||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 10 / Conformers submitted total number: 10 |