1gj0

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[[Image:1gj0.gif|left|200px]]
[[Image:1gj0.gif|left|200px]]
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{{Structure
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|PDB= 1gj0 |SIZE=350|CAPTION= <scene name='initialview01'>1gj0</scene>
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The line below this paragraph, containing "STRUCTURE_1gj0", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=AAB:2-DEOXY-5-PHOSPHORIBOSE+GROUP'>AAB</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>
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|ACTIVITY=
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|GENE=
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|DOMAIN=
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{{STRUCTURE_1gj0| PDB=1gj0 | SCENE= }}
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|RELATEDENTRY=[[1a9i|1A9I]], [[1a9j|1A9J]], [[1g5e|1G5E]], [[1g5d|1G5D]], [[1giz|1GIZ]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1gj0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gj0 OCA], [http://www.ebi.ac.uk/pdbsum/1gj0 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1gj0 RCSB]</span>
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}}
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'''NMR STRUCTURE OF AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: BETA ANOMER'''
'''NMR STRUCTURE OF AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: BETA ANOMER'''
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==About this Structure==
==About this Structure==
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1GJ0 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GJ0 OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GJ0 OCA].
==Reference==
==Reference==
Solution structure of an oligonucleotide containing an abasic site: evidence for an unusual deoxyribose conformation., Hoehn ST, Turner CJ, Stubbe J, Nucleic Acids Res. 2001 Aug 15;29(16):3413-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11504879 11504879]
Solution structure of an oligonucleotide containing an abasic site: evidence for an unusual deoxyribose conformation., Hoehn ST, Turner CJ, Stubbe J, Nucleic Acids Res. 2001 Aug 15;29(16):3413-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11504879 11504879]
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[[Category: Protein complex]]
 
[[Category: Hoehn, S T.]]
[[Category: Hoehn, S T.]]
[[Category: Stubbe, J.]]
[[Category: Stubbe, J.]]
[[Category: Turner, C J.]]
[[Category: Turner, C J.]]
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[[Category: apyrimidinic site]]
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[[Category: Apyrimidinic site]]
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[[Category: damaged dna]]
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[[Category: Damaged dna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 17:37:53 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:45:01 2008''
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Revision as of 14:37, 2 May 2008

Image:1gj0.gif

Template:STRUCTURE 1gj0

NMR STRUCTURE OF AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: BETA ANOMER


Overview

The antitumor antibiotic bleomycin causes two major lesions in the deoxyribose backbone of DNA: formation of 4'-keto abasic sites and formation of strand breaks with 3'-phosphoglycolate and 5'-phosphate ends. As a model for the 4'-keto abasic site, we have characterized an abasic site (X) in d(CCAAAGXACTGGG).d(CCCAGTACTTTGG) by two-dimensional NMR spectroscopy. A total of 475 NOEs and 101 dihedral angles provided the restraints for molecular modeling. Four unusual NOEs were observed between each anomer of the abasic site and the neighboring bases. In addition, four coupling constants for adjacent protons of the deoxyribose of both the alpha and beta anomers of the abasic site were observed. The modeling suggests that for both anomers the abasic site is extrahelical, without significant distortion of the backbone opposite the lesion. The coupling constants further allowed assignment of an unusual sugar pucker for each anomer. The unique position of the abasic site in our structural model for each anomer is discussed in terms of repair of such lesions in vivo.

About this Structure

Full crystallographic information is available from OCA.

Reference

Solution structure of an oligonucleotide containing an abasic site: evidence for an unusual deoxyribose conformation., Hoehn ST, Turner CJ, Stubbe J, Nucleic Acids Res. 2001 Aug 15;29(16):3413-23. PMID:11504879 Page seeded by OCA on Fri May 2 17:37:53 2008

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