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(-) Description

Title :  SOLUTION STRUCTURE OF A QUADRUPLEX FORMING DNA AND ITS INTERMIDIATE
 
Authors :  P. H. Bolton, V. M. Marathias, K. Wang
Date :  25 Jul 99  (Deposition) - 18 Aug 99  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A
Keywords :  Aptamer, Thrombin Binding, Potassium, Metal Binding Sites, Quadruplex, Intermediate, Dna (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  V. M. Marathias, P. H. Bolton
Structures Of The Potassium-Saturated, 2:1, And Intermediate, 1:1, Forms Of A Quadruplex Dna.
Nucleic Acids Res. V. 28 1969 2000
PubMed-ID: 10756199  |  Reference-DOI: 10.1093/NAR/28.9.1969
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA (5'- D(*GP*GP*TP*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3')
    ChainsA
    EngineeredYES
    Other DetailsTHROMBIN BINDING APTAMER INTERMEDIATE WITH POTASSIUM MINIMIZED POSITIONS
    SyntheticYES

 Structural Features

(-) Chains, Units

  
NMR Structure 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 20)

NMR Structure (1, 20)
No.NameCountTypeFull Name
1K20Ligand/IonPOTASSIUM ION

(-) Sites  (20, 20)

NMR Structure (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13BINDING SITE FOR RESIDUE K A 101
02AC2SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13 , K A:103BINDING SITE FOR RESIDUE K A 102
03AC3SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13 , K A:102 , K A:105 , K A:106 , K A:107 , K A:109BINDING SITE FOR RESIDUE K A 103
04AC4SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13BINDING SITE FOR RESIDUE K A 104
05AC5SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13 , K A:103BINDING SITE FOR RESIDUE K A 105
06AC6SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13 , K A:103BINDING SITE FOR RESIDUE K A 106
07AC7SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13 , K A:103BINDING SITE FOR RESIDUE K A 107
08AC8SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13BINDING SITE FOR RESIDUE K A 108
09AC9SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13 , K A:103 , K A:110BINDING SITE FOR RESIDUE K A 109
10BC1SOFTWAREDG A:2 , DT A:4 , DG A:5 , DG A:11 , DT A:13 , K A:109BINDING SITE FOR RESIDUE K A 110
11BC2SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:204 , K A:206 , K A:208BINDING SITE FOR RESIDUE K A 201
12BC3SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:203 , K A:208BINDING SITE FOR RESIDUE K A 202
13BC4SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:202 , K A:204 , K A:206 , K A:208 , K A:210BINDING SITE FOR RESIDUE K A 203
14BC5SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:201 , K A:203 , K A:205 , K A:207 , K A:208BINDING SITE FOR RESIDUE K A 204
15BC6SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:204 , K A:206 , K A:208 , K A:210BINDING SITE FOR RESIDUE K A 205
16BC7SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:201 , K A:203 , K A:205 , K A:208BINDING SITE FOR RESIDUE K A 206
17BC8SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:204 , K A:210BINDING SITE FOR RESIDUE K A 207
18BC9SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:14 , DG A:15 , K A:201 , K A:202 , K A:203 , K A:204 , K A:205 , K A:206 , K A:210BINDING SITE FOR RESIDUE K A 208
19CC1SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15BINDING SITE FOR RESIDUE K A 209
20CC2SOFTWAREDG A:1 , DG A:2 , DG A:6 , DT A:9 , DG A:10 , DG A:11 , DG A:14 , DG A:15 , K A:203 , K A:205 , K A:207 , K A:208BINDING SITE FOR RESIDUE K A 210

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1C35)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1C35)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1C35)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1C35)

(-) Exons   (0, 0)

(no "Exon" information available for 1C35)

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:DNA  Length:15
                                              
                  1c35 A  1 GGTTGGTGTGGTTGG 15
                                    10     

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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 1C35)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1C35)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1C35)

(-) Gene Ontology  (0, 0)

NMR Structure(hide GO term definitions)
    (no "Gene Ontology" information available for 1C35)

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