+Open data
-Basic information
Entry | Database: PDB / ID: 2jyf | ||||||
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Title | Tetraloop-receptor RNA complex | ||||||
Components | RNA (43-MER) | ||||||
Keywords | RNA/RNA / RNA structure / RNA:RNA complex / tetraloop-receptor / GAAA-tetraloop / RNA global structure / complex interface / RNA-RNA COMPLEX | ||||||
Function / homology | RNA / RNA (> 10) Function and homology information | ||||||
Method | SOLUTION NMR / simulated annealing, torsion angle dynamics | ||||||
Model details | We applied the small angle X-ray scattering data and NMR restraints to refine the global structure ...We applied the small angle X-ray scattering data and NMR restraints to refine the global structure of the tetraloop-receptor RNA:RNA complex. we defined the interface between the two monomers using the SAXS data in complete absence of intermolecular distance restraints | ||||||
Authors | Zuo, X. / Wang, J. / Foster, T.R. / Schwieters, C.D. / Tiede, D.M. | ||||||
Citation | Journal: To be Published Title: Tetraloop-receptor RNA complex Authors: Zuo, X. / Wang, J. / Foster, T.R. / Schwieters, C.D. / Tiede, D.M. / Butcher, S.E. / Wang, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2jyf.cif.gz | 523.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2jyf.ent.gz | 461.4 KB | Display | PDB format |
PDBx/mmJSON format | 2jyf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jy/2jyf ftp://data.pdbj.org/pub/pdb/validation_reports/jy/2jyf | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: RNA chain | Mass: 13873.258 Da / Num. of mol.: 2 / Source method: obtained synthetically |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR Details: We applied the small angle X-ray scattering data and NMR restraints to refine the global structure of the tetraloop-receptor RNA:RNA complex. we defined the interface between the two ...Details: We applied the small angle X-ray scattering data and NMR restraints to refine the global structure of the tetraloop-receptor RNA:RNA complex. we defined the interface between the two monomers using the SAXS data in complete absence of intermolecular distance restraints |
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NMR experiment | Type: 3D 1H-13C NOESY |
-Sample preparation
Details | Contents: 8 mg/ml (w/v) RNA:RNA complex, 95% H2O/5% D2O / Solvent system: 95% H2O/5% D2O |
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Sample | Conc.: 8 w/v / Component: RNA:RNA complex |
Sample conditions | Ionic strength: 20 / pH: 7.0 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing, torsion angle dynamics / Software ordinal: 1 Details: The structures were refined against the SAXS data and NMR-derived restraints. | ||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 10 |