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- PDB-1tbk: NMR structure of the VS ribozyme stem-loop V RNA in the absence o... -
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Basic information
Entry | Database: PDB / ID: 1tbk | ||||||
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Title | NMR structure of the VS ribozyme stem-loop V RNA in the absence of multivalent ions. | ||||||
![]() | VS ribozyme stem-loop V | ||||||
![]() | RNA / U-turn / hairpin | ||||||
Function / homology | RNA / RNA (> 10)![]() | ||||||
Method | SOLUTION NMR / simulated annealing, molecular dynamics | ||||||
Model type details | minimized average | ||||||
![]() | Campbell, D.O. / Legault, P. | ||||||
![]() | ![]() Title: Nuclear Magnetic Resonance Structure of the Varkud Satellite Ribozyme Stem-Loop V RNA and Magnesium-Ion Binding from Chemical-Shift Mapping Authors: Campbell, D.O. / Legault, P. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 121.7 KB | Display | ![]() |
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PDB format | ![]() | 100.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Summary document | ![]() | 322.4 KB | Display | ![]() |
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Full document | ![]() | 385.2 KB | Display | |
Data in XML | ![]() | 5.8 KB | Display | |
Data in CIF | ![]() | 8.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar 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: 5419.261 Da / Num. of mol.: 1 / Fragment: SL5 / Source method: obtained synthetically Details: This sequence is derived from the Neurospora Varkud satellite ribozyme |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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Sample preparation
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Sample conditions |
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-NMR measurement
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: minimized average structure | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: The submitted conformer models are the 10 structures with the lowest energy (MODEL 2 -- 11) Conformers calculated total number: 61 / Conformers submitted total number: 11 |