1s9n: Difference between revisions

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[[Image:1s9n.gif|left|200px]]
{{Seed}}
[[Image:1s9n.png|left|200px]]


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{{STRUCTURE_1s9n|  PDB=1s9n  |  SCENE=  }}  
{{STRUCTURE_1s9n|  PDB=1s9n  |  SCENE=  }}  


'''Solution structure of the nitrous acid (G)-(G) cross-linked DNA dodecamer duplex GCATCC(G)GATGC'''
===Solution structure of the nitrous acid (G)-(G) cross-linked DNA dodecamer duplex GCATCC(G)GATGC===




==Overview==
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Nitrous acid is a mutagenic agent. It can induce interstrand cross-links in duplex DNA, preferentially at d(CpG) steps: two guanines on opposite strands are linked via a single shared exocyclic imino group. Recent synthetic advances have led to the production of large quantities of such structurally homogenous cross-linked duplex DNA. Here we present the high resolution solution structure of the cross-linked dodecamer [d(GCATCCGGATGC)]2 (the cross-linked guanines are underlined), determined by 2D NMR spectroscopy, distance geometry, restrained molecular dynamics and iterative NOE refinement. The cross-linked guanines form a nearly planar covalently linked 'G:G base pair' with only minor propeller twisting, while the cytidine bases of their normal base pairing partners have been flipped out of the helix and adopt well defined extrahelical positions in the minor groove. On the 5'-side of the cross-link, the minor groove is widened to accommodate these extrahelical bases, and the major groove becomes quite narrow at the cross-link. The cross-linked 'G:G base pair' is well stacked on the spatially adjacent C:G base pairs, particularly on the 3'-side guanines. In addition to providing the first structure of a nitrous acid cross-link in DNA, these studies could be of major importance to the understanding of the mechanisms of nitrous acid cross-linking and mutagenicity, as well as the mechanisms responsible for its repair in intracellular environments. It is also the shortest DNA cross-link structure to be described.
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(as it appears on PubMed at http://www.pubmed.gov), where 15155847 is the PubMed ID number.
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{{ABSTRACT_PUBMED_15155847}}


==About this Structure==
==About this Structure==
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S9N OCA].  
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S9N OCA].  


==Reference==
==Reference==
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[[Category: Minor groove]]
[[Category: Minor groove]]
[[Category: Nitrous acid]]
[[Category: Nitrous acid]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 08:27:25 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 17:31:24 2008''

Revision as of 14:31, 28 July 2008

File:1s9n.png

Template:STRUCTURE 1s9n

Solution structure of the nitrous acid (G)-(G) cross-linked DNA dodecamer duplex GCATCC(G)GATGC

Template:ABSTRACT PUBMED 15155847

About this Structure

Full experimental information is available from OCA.

Reference

Solution structure of a nitrous acid induced DNA interstrand cross-link., Edfeldt NB, Harwood EA, Sigurdsson ST, Hopkins PB, Reid BR, Nucleic Acids Res. 2004 May 20;32(9):2785-94. Print 2004. PMID:15155847

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