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Yorodumi- PDB-1wks: Solution structure of an RNA stem-loop derived from the 3' conser... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1wks | ||||||||||||||||||||
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Title | Solution structure of an RNA stem-loop derived from the 3' conserved region of eel LINE UnaL2 | ||||||||||||||||||||
Components | 5'-R(*Keywords | RNA / pentaloop / LINE / retrotransposition | Function / homology | RNA / RNA (> 10) | Function and homology information Method | SOLUTION NMR / simulated annealing | Model type details | minimized average | Authors | Baba, S. / Kajikawa, M. / Okada, N. / Kawai, G. | Citation | Journal: Rna / Year: 2004 | Title: Solution structure of an RNA stem-loop derived from the 3' conserved region of eel LINE UnaL2 Authors: Baba, S. / Kajikawa, M. / Okada, N. / Kawai, G. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1wks.cif.gz | 217.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1wks.ent.gz | 191.1 KB | Display | PDB format |
PDBx/mmJSON format | 1wks.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wk/1wks ftp://data.pdbj.org/pub/pdb/validation_reports/wk/1wks | 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: 5467.309 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: Chemical synthesized 17-mer RNA corresponding to the RT binding site of eel LINE RNA. |
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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 conditions | Ionic strength: 50mM NaCl / pH: 6.0 / Pressure: ambient / Temperature: 298 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 / Software ordinal: 1 Details: The structures are based on a total of 298 restraints, 204 are NOE-derived distance constraints, 80 dihedral angle restraints, 14 distance restraints from hydrogen bonds. | ||||||||||||||||||||
NMR representative | Selection criteria: minimized average structure | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 21 |