+Open data
-Basic information
Entry | Database: PDB / ID: 2khy | ||||||
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Title | Specifier Domain of B. subtilis tyrS T box leader RNA | ||||||
Components | RNA (38-MER) | ||||||
Keywords | RNA / Specifier domain / Bacillus / S-turn / loop-E | ||||||
Function / homology | RNA / RNA (> 10) Function and homology information | ||||||
Method | SOLUTION NMR / DGSA-distance geometry simulated annealing | ||||||
Authors | Wang, J. / Henkin, T.M. | ||||||
Citation | Journal: Nucleic Acids Res. / Year: 2010 Title: NMR structure and dynamics of the Specifier Loop domain from the Bacillus subtilis tyrS T box leader RNA. Authors: Wang, J. / Henkin, T.M. / Nikonowicz, E.P. #1: Journal: J.Bacteriol. / Year: 1997 Title: Specificity of tRNA-mRNA interactions in Bacillus subtilis tyrS antitermination. Authors: Grundy, F.J. / Hodil, S.E. / Rollins, S.M. / Henkin, T.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2khy.cif.gz | 279.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2khy.ent.gz | 198.5 KB | Display | PDB format |
PDBx/mmJSON format | 2khy.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2khy_validation.pdf.gz | 326.1 KB | Display | wwPDB validaton report |
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Full document | 2khy_full_validation.pdf.gz | 466.4 KB | Display | |
Data in XML | 2khy_validation.xml.gz | 48.1 KB | Display | |
Data in CIF | 2khy_validation.cif.gz | 66.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kh/2khy ftp://data.pdbj.org/pub/pdb/validation_reports/kh/2khy | HTTPS FTP |
-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: 12224.326 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: For anisotropic experiments, phage Pf1 at 21 mg/ml was used. |
-Sample preparation
Details |
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Sample |
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Sample conditions |
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-NMR measurement
NMR spectrometer |
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-Processing
NMR software | Name: X-PLOR NIH / Developer: Schwieters, C. et al. / Classification: refinement |
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Refinement | Method: DGSA-distance geometry simulated annealing / Software ordinal: 1 |
NMR representative | Selection criteria: closest to the average |
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 100 / Conformers submitted total number: 10 |