+Open data
-Basic information
Entry | Database: PDB / ID: 1idv | ||||||
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Title | NMR structure of HCV ires RNA domain IIIC | ||||||
Components | HEPATITIS C IRES RNA DOMAIN IIIC | ||||||
Keywords | RNA / Hepatitis C RNA / IRES / Stem-loop / Domain IIIC | ||||||
Function / homology | RNA Function and homology information | ||||||
Method | SOLUTION NMR / simulated annealing, molecular dynamics relaxation matrix analysis | ||||||
Authors | Kaluarachchi, K. / Rijnbrand, R. / Lemon, S.M. / Gorenstein, D.G. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: Mutational and structural analysis of stem-loop IIIC of the hepatitis C virus and GB virus B internal ribosome entry sites Authors: Rijnbrand, R. / Thiviyanathan, V. / Kaluarachchi, K. / Lemon, S.M. / Gorenstein, D.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1idv.cif.gz | 62.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1idv.ent.gz | 44.1 KB | Display | PDB format |
PDBx/mmJSON format | 1idv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1idv_validation.pdf.gz | 321.1 KB | Display | wwPDB validaton report |
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Full document | 1idv_full_validation.pdf.gz | 370.9 KB | Display | |
Data in XML | 1idv_validation.xml.gz | 5 KB | Display | |
Data in CIF | 1idv_validation.cif.gz | 6.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/id/1idv ftp://data.pdbj.org/pub/pdb/validation_reports/id/1idv | HTTPS FTP |
-Related 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: 3207.965 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: Synthesized by in vitro transcription using T7 RNA polymerase |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: This structure was determined using standard 2D homonuclear techniques. |
-Sample preparation
Details |
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Sample conditions |
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Crystal grow | *PLUS Method: other / Details: NMR |
-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, molecular dynamics relaxation matrix analysis Software ordinal: 1 Details: The structures are based on 254 NOE restraints, 12 sugar pucker restraints and 9 hydrogen bonds | ||||||||||||
NMR representative | Selection criteria: fewest noe violations | ||||||||||||
NMR ensemble | Conformer selection criteria: back calculated data agree with experimental NOESY spectrum Conformers calculated total number: 20 / Conformers submitted total number: 10 |