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(-) Description

Title :  HIV-1 SUBTYPE A DIS RNA DUPLEX
 
Authors :  E. Ennifar, M. Yusupov, P. Walter, R. Marquet, B. Ehresmann, C. Ehresmann, P. Dumas
Date :  15 Dec 04  (Deposition) - 21 Dec 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hiv-1, Rna, Bulge, Magnesium (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Ennifar, M. Yusupov, P. Walter, R. Marquet, B. Ehresmann, C. Ehresmann, P. Dumas
The Crystal Structure Of The Dimerization Initiation Site Of Genomic Hiv-1 Rna Reveals An Extended Duplex With Two Adenine Bulges
Structure Fold. Des. V. 7 1439 1999
PubMed-ID: 10574792  |  Reference-DOI: 10.1016/S0969-2126(00)80033-7
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'- R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP *CP*AP*AP*G)-3'
    Chains: A, B
    Engineered: YES
    Other Details: HIV-1 DIS RNA
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 7)

Asymmetric/Biological Unit (1, 7)
No.NameCountTypeFull Name
1MG7Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREG A:12 , HOH A:167 , HOH A:172 , HOH B:145BINDING SITE FOR RESIDUE MG A 710
2AC2SOFTWAREU A:3 , G A:4 , HOH A:128 , G B:19 , C B:20BINDING SITE FOR RESIDUE MG A 720
3AC3SOFTWAREHOH A:129 , HOH A:149 , U B:3 , G B:4BINDING SITE FOR RESIDUE MG B 730
4AC4SOFTWAREG A:9 , G B:9 , G B:10BINDING SITE FOR RESIDUE MG B 750
5AC5SOFTWAREA A:8 , G A:9 , HOH A:122 , HOH A:761 , HOH A:762 , HOH A:763BINDING SITE FOR RESIDUE MG A 760

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Y99)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Y99)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Y99)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Y99)

(-) Exons   (0, 0)

(no "Exon" information available for 1Y99)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:RNA  Length:23
                                                      
                  1y99 A  1 CUUGCUGAGGUGCACACAGCAAG 23
                                    10        20   


Chain B from PDB  Type:RNA  Length:23
                                                      
                  1y99 B  1 CUUGCUGAGGUGCACACAGCAAG 23
                                    10        20
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1Y99)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1Y99)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1Y99)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1Y99)

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  1y99
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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

1jjn HIV-1 SUBTYPE A DIS RNA KISSING-COMPLEX
1k9w HIV-1 SUBTYPE A DIS RNA KISSING-COMPLEX
462d HIV-1 SUBTYPE A DIS RNA DUPLEX