1luh

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{{STRUCTURE_1luh| PDB=1luh | SCENE= }}
{{STRUCTURE_1luh| PDB=1luh | SCENE= }}
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'''SOLUTION NMR STRUCTURE OF SELF-COMPLIMENTARY DUPLEX 5'-D(TCCG*CGGA)2 CONTAINING A TRIMETHYLENE CROSSLINK AT THE N2 POSITION OF G*'''
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===SOLUTION NMR STRUCTURE OF SELF-COMPLIMENTARY DUPLEX 5'-D(TCCG*CGGA)2 CONTAINING A TRIMETHYLENE CROSSLINK AT THE N2 POSITION OF G*===
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==Overview==
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Malondialdehyde interstrand cross-links in DNA show strong preference for 5'-d(CpG) sequences. The cross-links are unstable and a trimethylene cross-link has been used as a surrogate for structural studies. A previous structural study of the 5'-d(CpG) cross-link in the sequence 5'-d(AGGCGCCT), where G is the modified nucleotide, by NMR spectroscopy and molecular dynamics using a simulated annealing protocol showed the guanine residues and the tether lay approximately in a plane such that the trimethylene tether and probably the malondialdehyde tether, as well, could be accommodated without major disruptions of duplex structure [Dooley et al. J. Am Chem. Soc. 2001, 123, 1730-1739]. The trimethylene cross-link has now been studied in a GpC motif using the reverse sequence. The structure lacks the planarity seen with the 5'-d(CpG) sequence and is skewed about the trimethylene cross-link. Melting studies indicate that the trimethylene cross-link is thermodynamically less stable in the GpC motif than in the 5-d(CpG). Furthermore, lack of planarity of the GpC cross-link precludes making an isosteric replacement of the trimethylene tether by malondialdehyde. A similar argument can be used to explain the 5'-d(CpG) preference for interchain cross-linking by acrolein.
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(as it appears on PubMed at http://www.pubmed.gov), where 12515507 is the PubMed ID number.
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{{ABSTRACT_PUBMED_12515507}}
==About this Structure==
==About this Structure==
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LUH OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LUH OCA].
==Reference==
==Reference==
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[[Category: Dna duplex]]
[[Category: Dna duplex]]
[[Category: Guanine n2-guanine n2 interstrand crosslink]]
[[Category: Guanine n2-guanine n2 interstrand crosslink]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 22:17:52 2008''

Revision as of 19:17, 2 July 2008

Image:1luh.png

Template:STRUCTURE 1luh

SOLUTION NMR STRUCTURE OF SELF-COMPLIMENTARY DUPLEX 5'-D(TCCG*CGGA)2 CONTAINING A TRIMETHYLENE CROSSLINK AT THE N2 POSITION OF G*

Template:ABSTRACT PUBMED 12515507

About this Structure

Full experimental information is available from OCA.

Reference

NMR determination of the conformation of a trimethylene interstrand cross-link in an oligodeoxynucleotide duplex containing a 5'-d(GpC) motif., Dooley PA, Zhang M, Korbel GA, Nechev LV, Harris CM, Stone MP, Harris TM, J Am Chem Soc. 2003 Jan 8;125(1):62-72. PMID:12515507

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