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(-) Description

Title :  RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG
 
Authors :  M. L. Kopka, L. Lavelle, G. W. Han, H. -L. Ng, R. E. Dickerson
Date :  02 Jun 03  (Deposition) - 09 Dec 03  (Release) - 09 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.15
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Rna/Dna Hybrid; Polypurine Tract Of Hiv-1; Moleuclar Replacement; Sugar Conformation, Dna-Rna Complex, Dna-Rna Hybrid (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. L. Kopka, L. Lavelle, G. W. Han, H. L. Ng, R. E. Dickerson
An Unusual Sugar Conformation In The Structure Of An Rna/Dn Decamer Of The Polypurine Tract May Affect Recognition By Rnase H.
J. Mol. Biol. V. 334 653 2003
PubMed-ID: 14636594  |  Reference-DOI: 10.1016/J.JMB.2003.09.057
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'-R(*CP*AP*AP*AP*GP*AP*AP*AP*AP*G)-3'
    ChainsA
    EngineeredYES
    FragmentPOLYPURINE TRACT OF HIV-1
    SyntheticYES
 
Molecule 2 - 5'-D(*CP*TP*TP*TP*TP*CP*TP*TP*TP*G)-3'
    ChainsB
    EngineeredYES
    SyntheticYES

 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
1AC1SOFTWAREA A:9 , DT B:18 , HOH B:134 , HOH B:135 , HOH B:136 , HOH B:137BINDING SITE FOR RESIDUE CA B 31
2AC2SOFTWAREG A:5 , HOH A:138 , HOH A:139 , HOH A:140 , HOH A:141 , HOH A:142 , HOH A:143BINDING SITE FOR RESIDUE CA A 32
3AC3SOFTWAREA A:9 , HOH A:144 , HOH A:145 , HOH A:146 , HOH A:147 , HOH A:148BINDING SITE FOR RESIDUE CA A 33
4AC4SOFTWAREG A:10 , DT B:18 , DG B:20 , HOH B:149 , HOH B:150 , HOH B:151 , HOH B:152BINDING SITE FOR RESIDUE CA B 34

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 1PJG)

(-) 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:10
                                         
                  1pjg A  1 CAAAGAAAAG 10
                                    10

Chain B from PDB  Type:DNA  Length:10
                                         
                  1pjg B 11 CTTTTCTTTG 20
                                    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 1PJG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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 Related Entries

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(-) Related Entries Specified in the PDB File

1jb8 SAME SEQUENCE CRYSTALLIZED IN DIFFERENT SPACE GROUP WITH DIFFERENT PACKING RELATED ID: UH0006 RELATED DB: NDB SAME SEQUENCE, MGOAC IN THE CRYSTALLIZATION BATCH