[English] 日本語
Yorodumi- PDB-1esy: NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIG... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1esy | ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Title | NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM | ||||||||||||||||||
Components | RNA (5'-R(P*Keywords | RNA / HIV-1 / Splice-donor site / platform motif | Function / homology | RNA / RNA (> 10) | Function and homology information Method | SOLUTION NMR / Distance Geometry, Simulated annealing, Energy mimimization | Authors | Amarasinghe, G.K. / De Guzman, R.N. / Turner, R.B. / Summers, M.F. | Citation | Journal: J.Mol.Biol. / Year: 2000 | Title: NMR structure of stem-loop SL2 of the HIV-1 psi RNA packaging signal reveals a novel A-U-A base-triple platform. Authors: Amarasinghe, G.K. / De Guzman, R.N. / Turner, R.B. / Summers, M.F. History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1esy.cif.gz | 253.2 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1esy.ent.gz | 202.2 KB | Display | PDB format |
PDBx/mmJSON format | 1esy.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1esy_validation.pdf.gz | 328 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 1esy_full_validation.pdf.gz | 432.1 KB | Display | |
Data in XML | 1esy_validation.xml.gz | 24.9 KB | Display | |
Data in CIF | 1esy_validation.cif.gz | 38.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/es/1esy ftp://data.pdbj.org/pub/pdb/validation_reports/es/1esy | HTTPS FTP |
-Related structure data
Related structure data | |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: RNA chain | Mass: 6148.712 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: T7 Transcript |
---|
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
| ||||||||||||||||||||||||
NMR details | Text: experimental temperature set to either 298 or 278 |
-Sample preparation
Details |
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample conditions | Ionic strength: 25 mM NaCl / pH: 5.5 / Pressure: ambient / Temperature: 298 K | ||||||||||||
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
|
---|
-Processing
NMR software |
| ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: Distance Geometry, Simulated annealing, Energy mimimization Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: fewest violations | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 100 / Conformers submitted total number: 20 |