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(-) Description

Title :  STRUCTURE OF SL4 RNA FROM THE HIV-1 PACKAGING SIGNAL
 
Authors :  D. J. Kerwood, M. J. Cavaluzzi, P. N. Borer
Date :  22 Aug 01  (Deposition) - 12 Dec 01  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (14x)
Keywords :  Hairpin, Tandem G-U Pairs, Gaga Tetraloops, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. J. Kerwood, M. J. Cavaluzzi, P. N. Borer
Structure Of Sl4 Rna From The Hiv-1 Packaging Signal.
Biochemistry V. 40 14518 2001
PubMed-ID: 11724565  |  Reference-DOI: 10.1021/BI0111909
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'- R(*GP*GP*GP*UP*GP*CP*GP*AP*GP*AP*GP*CP*GP*UP*CP*A)-3'
    ChainsA
    EngineeredYES
    Other DetailsHIV-1 PACKAGING SIGNAL SL4 HAIRPIN
    Other Details - SourceTHIS SEQUENCE OCCURS IN THE PACKAGING SIGNAL OF HIV-1.
    SyntheticYES

 Structural Features

(-) Chains, Units

  
NMR Structure (14x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 15)

NMR Structure (1, 15)
No.NameCountTypeFull Name
1NA15Ligand/IonSODIUM ION

(-) Sites  (15, 15)

NMR Structure (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREG A:2BINDING SITE FOR RESIDUE NA A 17
02AC2SOFTWAREG A:3 , U A:4 , G A:13 , U A:14BINDING SITE FOR RESIDUE NA A 18
03AC3SOFTWAREG A:3 , U A:4BINDING SITE FOR RESIDUE NA A 19
04AC4SOFTWAREU A:4 , G A:5BINDING SITE FOR RESIDUE NA A 20
05AC5SOFTWAREG A:13 , U A:14BINDING SITE FOR RESIDUE NA A 21
06AC6SOFTWAREG A:7 , A A:8BINDING SITE FOR RESIDUE NA A 22
07AC7SOFTWAREC A:6BINDING SITE FOR RESIDUE NA A 23
08AC8SOFTWAREG A:7 , A A:8 , G A:9BINDING SITE FOR RESIDUE NA A 24
09AC9SOFTWAREG A:7 , G A:9 , A A:10BINDING SITE FOR RESIDUE NA A 25
10BC1SOFTWAREA A:10 , G A:11BINDING SITE FOR RESIDUE NA A 26
11BC2SOFTWAREG A:2 , G A:3BINDING SITE FOR RESIDUE NA A 27
12BC3SOFTWAREC A:12 , G A:13BINDING SITE FOR RESIDUE NA A 28
13BC4SOFTWAREG A:11 , C A:12BINDING SITE FOR RESIDUE NA A 29
14BC5SOFTWAREU A:14 , C A:15BINDING SITE FOR RESIDUE NA A 30
15BC6SOFTWAREC A:15 , A A:16BINDING SITE FOR RESIDUE NA A 31

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1JTW)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:RNA  Length:16
                                               
                  1jtw A  1 GGGUGCGAGAGCGUCA 16
                                    10      

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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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NMR Structure(hide GO term definitions)
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