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Yorodumi- PDB-2jtp: Solution Structure of the Frameshift-Inducing RNA Stem-Loop in SIV -
+Open data
-Basic information
Entry | Database: PDB / ID: 2jtp | ||||||
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Title | Solution Structure of the Frameshift-Inducing RNA Stem-Loop in SIV | ||||||
Components | SIV17-50 RNA (34-MER) | ||||||
Keywords | RNA / SIV / RNA Stem-Loop / Triloop / Frameshifting / HIV-2 | ||||||
Function / homology | RNA / RNA (> 10) Function and homology information | ||||||
Method | SOLUTION NMR / simulated annealing, torsion angle dynamics, molecular dynamics, residual dipolar couplings | ||||||
Authors | Marcheschi, R.J. / Staple, D.W. / Butcher, S.E. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2007 Title: Programmed Ribosomal Frameshifting in SIV Is Induced by a Highly Structured RNA Stem-Loop Authors: Marcheschi, R.J. / Staple, D.W. / Butcher, S.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2jtp.cif.gz | 416.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2jtp.ent.gz | 364.6 KB | Display | PDB format |
PDBx/mmJSON format | 2jtp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jt/2jtp ftp://data.pdbj.org/pub/pdb/validation_reports/jt/2jtp | 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: RNA chain | Mass: 10912.575 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: In vitro transcription using purified T7 RNA polymerase and synthetic DNA oligonucleotides |
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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 | pH: 7.0 / Pressure: ambient / Temperature: 308 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing, torsion angle dynamics, molecular dynamics, residual dipolar couplings Software ordinal: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||
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: 20 |