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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF THE DNA QUADRUPLEX D(TGGGGT) S1
 
Authors :  C. Caceres, G. Wright, C. Gouyette, G. Parkinson, J. A. Subirana
Date :  15 Jan 04  (Deposition) - 24 Feb 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  E,F,G,H  (1x)
Keywords :  Quadruplex Dna, Thymine Triads, Thallium (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Caceres, G. Wright, C. Gouyette, G. Parkinson, J. A. Subirana
A Thymine Tetrad In D(Tggggt) Quadruplexes Stabilized With Tl+1/Na+1 Ions
Nucleic Acids Res. V. 32 1097 2004
PubMed-ID: 14960719  |  Reference-DOI: 10.1093/NAR/GKH269
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'-D(*TP*GP*GP*GP*GP*T)-3'
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Other Details: THIS SEQUENCE OCCURS NATURALLY IN TETRAHYMENA
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCD    
Biological Unit 2 (1x):     EFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric Unit (3, 8)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
2NA1Ligand/IonSODIUM ION
3TL6Ligand/IonTHALLIUM (I) ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2NA-1Ligand/IonSODIUM ION
3TL-1Ligand/IonTHALLIUM (I) ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2NA-1Ligand/IonSODIUM ION
3TL-1Ligand/IonTHALLIUM (I) ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREDG E:624 , DG E:625 , DG F:734 , DG F:735 , HOH F:1109 , DG G:844 , DG G:845 , DG H:954 , DG H:955BINDING SITE FOR RESIDUE NA E 1107
2AC2SOFTWAREHOH E:1137 , HOH E:1190 , HOH H:1100 , HOH H:1117 , HOH H:1118 , HOH H:1123BINDING SITE FOR RESIDUE MG A 2100
3AC3SOFTWAREDG E:623 , DG E:624 , TL E:1103 , DG F:733 , DG F:734 , DG G:843 , DG G:844 , DG H:953 , DG H:954BINDING SITE FOR RESIDUE TL E 1101
4AC4SOFTWAREDG A:183 , DG A:184 , TL A:1104 , DG B:293 , DG B:294 , DG C:403 , DG C:404 , DG D:513 , DG D:514BINDING SITE FOR RESIDUE TL A 1102
5AC5SOFTWARETL A:1105 , DG E:622 , DG E:623 , TL E:1101 , DG F:732 , DG F:733 , DG G:842 , DG G:843 , DG H:952 , DG H:953BINDING SITE FOR RESIDUE TL E 1103
6AC6SOFTWAREDG A:182 , DG A:183 , TL A:1102 , TL A:1105 , DG B:292 , DG B:293 , DG C:402 , DG C:403 , DG D:512 , DG D:513BINDING SITE FOR RESIDUE TL A 1104
7AC7SOFTWAREDG A:182 , TL A:1104 , DG B:292 , DG C:402 , DG D:512 , DG E:622 , TL E:1103 , DG F:732 , DG G:842 , DG H:952BINDING SITE FOR RESIDUE TL A 1105
8AC8SOFTWAREDG A:185 , HOH A:1108 , DG B:294 , DG B:295 , DG C:404 , DG C:405 , DG D:514 , DG D:515BINDING SITE FOR RESIDUE TL B 1106

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1S45)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1S45)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1S45)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1S45)

(-) Exons   (0, 0)

(no "Exon" information available for 1S45)

(-) Sequences/Alignments

Asymmetric 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    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:DNA  Length:6
                                      
                 1s45 A 181 TGGGGT 186


Chain B from PDB  Type:DNA  Length:6
                                      
                 1s45 B 291 TGGGGT 296


Chain C from PDB  Type:DNA  Length:6
                                      
                 1s45 C 401 TGGGGT 406


Chain D from PDB  Type:DNA  Length:6
                                      
                 1s45 D 511 TGGGGT 516


Chain E from PDB  Type:DNA  Length:6
                                      
                 1s45 E 621 TGGGGT 626


Chain F from PDB  Type:DNA  Length:6
                                      
                 1s45 F 731 TGGGGT 736


Chain G from PDB  Type:DNA  Length:6
                                      
                 1s45 G 841 TGGGGT 846


Chain H from PDB  Type:DNA  Length:6
                                      
                 1s45 H 951 TGGGGT 956
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 1S45)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1S45)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1S45)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1S45)

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  1s45
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 Related Entries

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