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(-) Description

Title :  STRUCTURE OF A PARALLEL-STRANDED GUANINE TETRAPLEX CRYSTALLISED WITH MONOVALENT IONS
 
Authors :  C. Creze, B. Rinaldi, R. Haser, P. Bouvet, P. Gouet
Date :  04 Dec 06  (Deposition) - 22 May 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
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 :  Dna, Quadruple Helix, Parallel-Stranded (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Creze, B. Rinaldi, R. Haser, P. Bouvet, P. Gouet
Structure Of A D(Tggggt) Quadruplex Crystallized In The Presence Of Li+ Ions.
Acta Crystallogr. , Sect. D V. 63 682 2007
PubMed-ID: 17505106  |  Reference-DOI: 10.1107/S0907444907013315
(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
    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  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1LI1Ligand/IonLITHIUM ION
2NA7Ligand/IonSODIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1LI-1Ligand/IonLITHIUM ION
2NA-1Ligand/IonSODIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1LI-1Ligand/IonLITHIUM ION
2NA-1Ligand/IonSODIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREDG A:3 , DG A:4 , NA A:8 , DG B:13 , DG B:14 , DG C:23 , DG C:24 , DG D:33 , DG D:34BINDING SITE FOR RESIDUE NA A 7
2AC2SOFTWAREDG A:2 , DG A:3 , NA A:7 , NA A:9 , DG B:12 , DG B:13 , DG C:22 , DG C:23 , DG D:32 , DG D:33BINDING SITE FOR RESIDUE NA A 8
3AC3SOFTWARENA A:9 , NA E:4 , DG E:42 , DG E:43 , DG F:52 , DG F:53 , DG G:62 , DG G:63 , DG H:72 , DG H:73BINDING SITE FOR RESIDUE NA E 3
4AC4SOFTWARENA E:3 , DG E:43 , DG E:44 , DG F:53 , DG F:54 , DG G:63 , DG G:64 , DG H:73 , DG H:74BINDING SITE FOR RESIDUE NA E 4
5AC5SOFTWAREDG A:2 , NA A:8 , DG B:12 , DG C:22 , DG D:32 , NA E:3 , DG E:42 , DG F:52 , DG G:62 , DG H:72BINDING SITE FOR RESIDUE NA A 9
6AC6SOFTWAREHOH D:38 , DG E:45 , DG F:55 , DG G:65 , DG H:75BINDING SITE FOR RESIDUE NA E 6
7AC7SOFTWAREDG A:5 , HOH A:20 , DG B:15 , DG C:25 , DG D:35BINDING SITE FOR RESIDUE NA A 10
8AC8SOFTWAREHOH B:23 , HOH B:63 , DG C:23 , DG C:24 , HOH C:85BINDING SITE FOR RESIDUE LI C 8

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O4F)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2O4F)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O4F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O4F)

(-) Exons   (0, 0)

(no "Exon" information available for 2O4F)

(-) 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
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Chain A from PDB  Type:DNA  Length:6
                                     
                  2o4f A  1 TGGGGT  6


Chain B from PDB  Type:DNA  Length:6
                                     
                  2o4f B 11 TGGGGT 16


Chain C from PDB  Type:DNA  Length:6
                                     
                  2o4f C 21 TGGGGT 26


Chain D from PDB  Type:DNA  Length:6
                                     
                  2o4f D 31 TGGGGT 36


Chain E from PDB  Type:DNA  Length:6
                                     
                  2o4f E 41 TGGGGT 46


Chain F from PDB  Type:DNA  Length:6
                                     
                  2o4f F 51 TGGGGT 56


Chain G from PDB  Type:DNA  Length:6
                                     
                  2o4f G 61 TGGGGT 66


Chain H from PDB  Type:DNA  Length:6
                                     
                  2o4f H 71 TGGGGT 76
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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 2O4F)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2O4F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2O4F)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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