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Yorodumi- PDB-2ldt: The 912-888 alternate conformation for helix 27 of E.coli 16S rRNA -
+Open data
-Basic information
Entry | Database: PDB / ID: 2ldt | ||||||
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Title | The 912-888 alternate conformation for helix 27 of E.coli 16S rRNA | ||||||
Components | RNA (31-MER) | ||||||
Keywords | RNA / rRNA / switch helix | ||||||
Function / homology | RNA / RNA (> 10) Function and homology information | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Model details | closest to the average, model 1 | ||||||
Authors | Spano, M.N. / Walter, N.G. | ||||||
Citation | Journal: Biopolymers / Year: 2011 Title: Solution structure of an alternate conformation of helix27 from Escherichia coli16S rRNA. Authors: Spano, M.N. / Walter, N.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ldt.cif.gz | 249.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ldt.ent.gz | 210.9 KB | Display | PDB format |
PDBx/mmJSON format | 2ldt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2ldt_validation.pdf.gz | 595.1 KB | Display | wwPDB validaton report |
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Full document | 2ldt_full_validation.pdf.gz | 775.9 KB | Display | |
Data in XML | 2ldt_validation.xml.gz | 33.9 KB | Display | |
Data in CIF | 2ldt_validation.cif.gz | 37.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ld/2ldt ftp://data.pdbj.org/pub/pdb/validation_reports/ld/2ldt | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: RNA chain | Mass: 10012.048 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: transcribed using T7 RNA polymerase from a chemically synthesized double-stranded DNA template. |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR / Details: ensemble of 13 low-energy nmr structures | ||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.8 - 1.6 mM [U-99% 13C; U-99% 15N] RNA (31-MER), 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O |
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Sample | Units: mM / Component: RNA (31-MER)-1 / Isotopic labeling: [U-99% 13C; U-99% 15N] / Conc. range: 0.8-1.6 |
Sample conditions | Ionic strength: 0.05 / pH: 6.4 / Pressure: ambient / Temperature: 293 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | |||||||||
NMR constraints | NOE constraints total: 449 | |||||||||
NMR representative | Selection criteria: closest to the average | |||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 50 / Conformers submitted total number: 13 |