2hsr: Difference between revisions

Revision as of 14:42, 27 July 2008

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File:2hsr.png

Template:STRUCTURE 2hsr

13mer duplex DNA containing an abasic site with beta anomer13mer duplex DNA containing an abasic site with beta anomer

Template:ABSTRACT PUBMED 17323932

About this StructureAbout this Structure

Full experimental information is available from OCA.

ReferenceReference

Nuclear magnetic resonance structural studies and molecular modeling of duplex DNA containing normal and 4'-oxidized abasic sites., Chen J, Dupradeau FY, Case DA, Turner CJ, Stubbe J, Biochemistry. 2007 Mar 20;46(11):3096-107. Epub 2007 Feb 27. PMID:17323932

Page seeded by OCA on Sun Jul 27 14:42:51 2008

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-[[Image:2hsr.gif|left|200px]]
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 {{STRUCTURE_2hsr|  PDB=2hsr  |  SCENE=  }}
-'''13mer duplex DNA containing an abasic site with beta anomer'''
+===13mer duplex DNA containing an abasic site with beta anomer===
-==Overview==
+<!--
-A 4'-oxidized abasic site (X) has been synthesized in a defined duplex DNA sequence, 5'-d(CCAAAGXACCGGG)-3'/3'-d(GGTTTCATGGCCC)-5' (1). Its structure has been determined by two-dimensional NMR methods, molecular modeling, and molecular dynamics simulations. 1 is globally B-form with the base (A) opposite X intrahelical and well-stacked. Only the alpha anomer of X is observed, and the abasic site deoxyribose is largely intrahelical. These results are compared with a normal abasic site (Y) in the same sequence context (2). Y is composed of a 60:40 mixture of alpha and beta anomers (2alpha and 2beta). In both 2alpha and 2beta, the base (A) opposite Y is intrahelical and well-stacked and the abasic site deoxyribose is predominantly extrahelical, consistent with the reported structures of the normal abasic site in a similar sequence context [Hoehn, S. T., Turner, C. J., and Stubbe, J. (2001) Nucleic Acids Res. 29, 3413-3423]. Molecular dynamics simulations reveal that the normal abasic site appears to be conformationally more flexible than the 4'-oxidized abasic site. The importance of the structure and flexibility of the abasic site in the recognition by the DNA repair enzyme Ape1 is discussed.
+The line below this paragraph, {{ABSTRACT_PUBMED_17323932}}, adds the Publication Abstract to the page
+(as it appears on PubMed at http://www.pubmed.gov), where 17323932 is the PubMed ID number.
+-->
+{{ABSTRACT_PUBMED_17323932}}
 ==About this Structure==
-Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSR OCA].
+Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSR OCA].
 ==Reference==
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 [[Category: Base excision repair]]
 [[Category: Dna damage]]
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