Literature DB >> 22505405

Structure of the tetradecanucleotide d(CCCCGGTACCGGGG)2 as an A-DNA duplex.

Pradeep Kumar Mandal1, Sarkarai Venkadesh, Namasivayam Gautham.   

Abstract

The crystal structure of the tetradecanucleotide sequence d(CCCCGGTACCGGGG)(2) has been determined at 2.5 Å resolution in the tetragonal space group P4(1). This sequence was designed with the expectation of a four-way junction. However, the sequence crystallized as an A-DNA duplex and represents more than one full turn of the A-helix. The crystallographic asymmetric unit consists of one tetradecanucleotide duplex. The structural parameters of the A-type DNA duplex structure and the crystal-packing arrangement are described. One Mn(2+) ion was identified with direct coordination to the N7 position of G(13) and a water molecule at the major-groove side of the C(2)·G(13) base pair.
© 2012 International Union of Crystallography. All rights reserved.

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Year:  2012        PMID： 22505405      PMCID： PMC3325805          DOI： 10.1107/S174430911200869X

Source DB:  PubMed          Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun        ISSN： 1744-3091


  31 in total

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Journal:  J Mol Biol       Date:  2001-10-12       Impact factor: 5.469

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Authors:  N V Hud; M Polak
Journal:  Curr Opin Struct Biol       Date:  2001-06       Impact factor: 6.809

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Journal:  Acta Chem Scand       Date:  1991-03

5.  Effect of crystal packing environment on conformation of the DNA duplex. Molecular structure of the A-DNA octamer d(G-T-G-T-A-C-A-C) in two crystal forms.

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Authors:  B W Matthews
Journal:  J Mol Biol       Date:  1968-04-28       Impact factor: 5.469

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Journal:  Biochemistry       Date:  1986-01-14       Impact factor: 3.162

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Authors:  T K Chiu; R E Dickerson
Journal:  J Mol Biol       Date:  2000-08-25       Impact factor: 5.469

9.  Structure of d(CCCTAGGG): comparison with nine isomorphous octamer sequences reveals four distinct patterns of sequence-dependent intermolecular interactions.

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Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1996-09-01

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Authors:  U Heinemann; C Alings; M Bansal
Journal:  EMBO J       Date:  1992-05       Impact factor: 11.598
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  5 in total

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Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2017-04-26       Impact factor: 1.056

2.  Structure of d(CCCCGGTACCGGGG)2 at 1.65 Å resolution.

Authors:  Monica Purushothaman; Anna Varghese; Pradeep Kumar Mandal; Namasivayam Gautham
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2014-06-18       Impact factor: 1.056

3.  Multispectroscopic and Computational Investigation of ct-DNA Binding Properties with Hydroxybenzylidene Containing Tetrahydrocarbazole Derivative.

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4.  Interactions of Mn2+ with a non-self-complementary Z-type DNA duplex.

Authors:  P K Mandal; S Venkadesh; N Gautham
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2012-11-14

5.  Ultrafast vibrational dynamics of the DNA backbone at different hydration levels mapped by two-dimensional infrared spectroscopy.

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  5 in total

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