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(-) Description

Title :  STRUCTURE OF THE HUMAN G-QUADRUPLEX REVEALS A NOVEL TOPOLOGY
 
Authors :  G. N. Parkinson, M. P. H. Lee, S. Neidle
Date :  25 Oct 01  (Deposition) - 31 May 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Quadruplex Dna, Double Chain Reversal Loop, Dimeric Quadruplex, Human Telomere Sequence, G(Anti). G(Anti) . G(Anti). G(Anti), Parallel Stranded (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. N. Parkinson, M. P. Lee, S. Neidle
Crystal Structure Of Parallel Quadruplexes From Human Telomeric Dna.
Nature V. 417 876 2002
PubMed-ID: 12050675  |  Reference-DOI: 10.1038/NATURE755
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'-D(*(BRU)P*AP*GP*GP*GP*(BRU) P*TP*AP*GP*GP*GP*T)-3'
    Chains: A, B
    Engineered: YES
    Other Details: THIS SEQUENCE OCCURS NATURALLY IN HUMANS
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1BRU4Mod. Nucleotide5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
2K2Ligand/IonPOTASSIUM ION
3NA1Ligand/IonSODIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREDG A:4 , DG A:5 , DG A:10 , DG A:11 , K A:26 , DG B:16 , DG B:17 , DG B:22 , DG B:23BINDING SITE FOR RESIDUE K A 25
2AC2SOFTWAREDG A:3 , DG A:4 , DG A:9 , DG A:10 , K A:25 , DG B:15 , DG B:16 , DG B:21 , DG B:22BINDING SITE FOR RESIDUE K A 26
3AC3SOFTWAREDG A:5 , DT A:7BINDING SITE FOR RESIDUE NA A 27

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1K8P)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1K8P)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1K8P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1K8P)

(-) Exons   (0, 0)

(no "Exon" information available for 1K8P)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:DNA  Length:12
                                           
                  1k8p A  1 uAGGGuTAGGGT 12
                            |    |  10  
                            |    |      
                            1-BRU|      
                                 6-BRU  


Chain B from PDB  Type:DNA  Length:12
                                           
                  1k8p B 13 uAGGGuTAGGGT 24
                            |    |  22  
                           13-BRU|      
                                18-BRU
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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 1K8P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1K8P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1K8P)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1K8P)

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  1k8p
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 Related Entries

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

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