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(-) Description

Title :  THE RATIONAL DESIGN AND STRUCTURAL ANALYSIS OF A SELF-ASSEMBLED THREE-DIMENSIONAL DNA CRYSTAL
 
Authors :  J. J. Birktoft, J. Zheng, N. C. Seeman
Date :  19 Feb 09  (Deposition) - 01 Sep 09  (Release) - 22 Sep 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.02
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (3x)
Keywords :  Nanotechnology, Dna Crystals, Dna Crossover, Designed Crystal Lattice (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Zheng, J. J. Birktoft, Y. Chen, T. Wang, R. Sha, P. E. Constantinou, S. L. Ginell, C. Mao, N. C. Seeman
From Molecular To Macroscopic Via The Rational Design Of A Self-Assembled 3D Dna Crystal.
Nature V. 461 74 2009
PubMed-ID: 19727196  |  Reference-DOI: 10.1038/NATURE08274
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA (5'- D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*AP*CP*GP*GP*AP*CP*AP*TP *CP*A)-3')
    Chains: A
    Engineered: YES
    Other Details: DNA STRANDS WERE SYNTHESIZED BY STANDARD PHOSPHORAMIDITE TECHNIQUES ON AN APPLIED BIOSYSTEMS 394 DNA SYNTHESIZER USING TRITYL-ON MODE.
    Synthetic: YES
 
Molecule 2 - DNA (5'-D(P*CP*CP*GP*TP*AP*CP*A)-3')
    Chains: B
    Engineered: YES
    Fragment: SYMMETRICALLY- AND SEQUENTIALLY REPEATING UNIT OF A CIRCULAR DNA MOLECULES, SEE REMARK 400 FOR DETAILS.
    Other Details: DNA STRANDS WERE SYNTHESIZED BY STANDARD PHOSPHORAMIDITE TECHNIQUES ON AN APPLIED BIOSYSTEMS 394 DNA SYNTHESIZER USING TRITYL-ON
    Synthetic: YES
 
Molecule 3 - DNA (5'-D(P*GP*GP*CP*TP*GP*C)-3')
    Chains: C
    Engineered: YES
    Fragment: LAST 6 RESIDUES OF A DNA MOLECULE USED IN EXPERIMENT, SEE REMARK 400 FOR DETAILS.
    Other Details: DNA STRANDS WERE SYNTHESIZED BY STANDARD PHOSPHORAMIDITE TECHNIQUES ON AN APPLIED BIOSYSTEMS 394 DNA SYNTHESIZER USING TRITYL-ON
    Synthetic: YES
 
Molecule 4 - DNA (5'-D(*TP*CP*TP*GP*AP*TP*GP*T)-3')
    Chains: D
    Engineered: YES
    Fragment: FIRST 8 RESIDUES OF A DNA MOLECULE USED IN EXPERIMENT, SEE REMARK 400 FOR DETAILS.
    Other Details: DNA STRANDS WERE SYNTHESIZED BY STANDARD PHOSPHORAMIDITE TECHNIQUES ON AN APPLIED BIOSYSTEMS 394 DNA SYNTHESIZER USING TRITYL-ON
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (3x): ABCD

Summary Information (see also Sequences/Alignments below)

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Chain A from PDB  Type:DNA  Length:21
                                                     
                 3gbi A 101 GAGCAGCCTGTACGGACATCA 121
                                   110       120 


Chain B from PDB  Type:DNA  Length:7
                                       
                 3gbi B 119 CCGTACA 125


Chain C from PDB  Type:DNA  Length:6
                                      
                 3gbi C 209 GGCTGC 214


Chain D from PDB  Type:DNA  Length:8
                                        
                 3gbi D 101 TCTGATGT 108
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