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(-) Description

Title :  A 1.3 A RESOLUTION CRYSTAL STRUCTURE OF THE HIV-1 TRANS-ACTIVATION RESPONSE REGION RNA STEM REVEALS A METAL ION-DEPENDENT BULGE CONFORMATION
 
Authors :  J. A. Ippolito, T. A. Steitz
Date :  30 Apr 98  (Deposition) - 11 Sep 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Double Helix, Overhanging Bases, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Ippolito, T. A. Steitz
A 1. 3-A Resolution Crystal Structure Of The Hiv-1 Trans-Activation Response Region Rna Stem Reveals A Metal Ion-Dependent Bulge Conformation.
Proc. Natl. Acad. Sci. Usa V. 95 9819 1998
PubMed-ID: 9707559  |  Reference-DOI: 10.1073/PNAS.95.17.9819
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA (5'- R(*GP*GP*CP*CP*AP*GP*AP*UP*CP*UP*GP*AP*GP*CP*G)-3')
    Chains: A
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - RNA (5'-R(*GP*CP*UP*CP*UP*CP*UP*GP*GP*CP*CP*C)- 3')
    Chains: B
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREU A:23 , C A:24 , G A:26 , HOH A:52 , HOH A:53 , HOH A:54BINDING SITE FOR RESIDUE CA A 48
2AC2SOFTWAREG A:26 , HOH A:55 , HOH A:56 , HOH A:58 , HOH A:59 , HOH A:60 , HOH A:136BINDING SITE FOR RESIDUE CA A 49
3AC3SOFTWAREHOH A:67 , HOH A:68 , HOH A:69 , HOH A:70 , HOH A:71 , HOH A:189 , HOH A:210 , HOH B:162BINDING SITE FOR RESIDUE CA A 51
4AC4SOFTWAREA A:27 , HOH A:61 , HOH A:62 , HOH A:63 , HOH A:64 , HOH A:65 , HOH A:66BINDING SITE FOR RESIDUE CA A 50

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 397D)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 397D)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 397D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 397D)

(-) Exons   (0, 0)

(no "Exon" information available for 397D)

(-) Sequences/Alignments

Asymmetric/Biological Unit
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Chain A from PDB  Type:RNA  Length:15
                                              
                  397d A 16 GGCCAGAUCUGAGCG 30
                                    25     


Chain B from PDB  Type:RNA  Length:12
                                           
                  397d B 36 GCUCUCUGGCCC 47
                                    45
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 397D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 397D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 397D)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 397D)

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  397d
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

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