1u6n

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[[Image:1u6n.gif|left|200px]]
[[Image:1u6n.gif|left|200px]]
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{{Structure
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<!--
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|PDB= 1u6n |SIZE=350|CAPTION= <scene name='initialview01'>1u6n</scene>
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The line below this paragraph, containing "STRUCTURE_1u6n", creates the "Structure Box" on the page.
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|SITE=
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|LIGAND= <scene name='pdbligand=2BD:N1-(1-HYDROXY-3-BUTEN-2(S)-YL)-2&#39;-DEOXYINOSINE+MONO+PHOSPHORIC+ACID'>2BD</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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|DOMAIN=
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{{STRUCTURE_1u6n| PDB=1u6n | SCENE= }}
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|RELATEDENTRY=[[1u6o|1U6O]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1u6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u6n OCA], [http://www.ebi.ac.uk/pdbsum/1u6n PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1u6n RCSB]</span>
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'''Solution Structure of an Oligodeoxynucleotide Containing a Butadiene Derived N1 b-Hydroxyalkyl Adduct on Deoxyinosine in the Human N-ras Codon 61 Sequence'''
'''Solution Structure of an Oligodeoxynucleotide Containing a Butadiene Derived N1 b-Hydroxyalkyl Adduct on Deoxyinosine in the Human N-ras Codon 61 Sequence'''
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==About this Structure==
==About this Structure==
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1U6N 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=1U6N OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U6N OCA].
==Reference==
==Reference==
Structure of an oligodeoxynucleotide containing a butadiene oxide-derived N1 beta-hydroxyalkyl deoxyinosine adduct in the human N-ras codon 61 sequence., Scholdberg TA, Merritt WK, Dean SM, Kowalcyzk A, Harris CM, Harris TM, Rizzo CJ, Lloyd RS, Stone MP, Biochemistry. 2005 Mar 8;44(9):3327-37. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15736943 15736943]
Structure of an oligodeoxynucleotide containing a butadiene oxide-derived N1 beta-hydroxyalkyl deoxyinosine adduct in the human N-ras codon 61 sequence., Scholdberg TA, Merritt WK, Dean SM, Kowalcyzk A, Harris CM, Harris TM, Rizzo CJ, Lloyd RS, Stone MP, Biochemistry. 2005 Mar 8;44(9):3327-37. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15736943 15736943]
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[[Category: Protein complex]]
 
[[Category: Dean, S M.]]
[[Category: Dean, S M.]]
[[Category: Harris, C M.]]
[[Category: Harris, C M.]]
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[[Category: Scholdberg, T A.]]
[[Category: Scholdberg, T A.]]
[[Category: Stone, M P.]]
[[Category: Stone, M P.]]
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[[Category: butadiene]]
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[[Category: Butadiene]]
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[[Category: deoxyinosine]]
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[[Category: Deoxyinosine]]
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[[Category: nmr]]
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[[Category: Nmr]]
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[[Category: ras61,]]
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[[Category: Ras61]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 10:49:21 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:06:03 2008''
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Revision as of 07:49, 3 May 2008

Image:1u6n.gif

Template:STRUCTURE 1u6n

Solution Structure of an Oligodeoxynucleotide Containing a Butadiene Derived N1 b-Hydroxyalkyl Adduct on Deoxyinosine in the Human N-ras Codon 61 Sequence


Overview

The solution structure of the N1-(1-hydroxy-3-buten-2(S)-yl)-2'-deoxyinosine adduct arising from the alkylation of adenine N1 by butadiene epoxide (BDO), followed by deamination to deoxyinosine, was determined, in the oligodeoxynucleotide d(CGGACXAGAAG).d(CTTCTCGTCCG). This oligodeoxynucleotide contained the BDO adduct at the second position of codon 61 of the human N-ras protooncogene, and was named the ras61 S-N1-BDO-(61,2) adduct. (1)H NMR revealed a weak C(5) H1' to X(6) H8 NOE, followed by an intense X(6) H8 to X(6) H1' NOE. Simultaneously, the X(6) H8 to X(6) H3' NOE was weak. The resonance arising from the T(17) imino proton was not observed. (1)H NOEs between the butadiene moiety and the DNA positioned the adduct in the major groove. Structural refinement based upon a total of 364 NOE-derived distance restraints yielded a structure in which the modified deoxyinosine was in the high syn conformation about the glycosyl bond, and T(17), the complementary nucleotide, was stacked into the helix, but not hydrogen bonded with the adducted inosine. The refined structure provided a plausible hypothesis as to why this N1 deoxyinosine adduct strongly coded for the incorporation of dCTP during trans lesion DNA replication, both in Escherichia coli [Rodriguez, D. A., Kowalczyk, A., Ward, J. B. J., Harris, C. M., Harris, T. M., and Lloyd, R. S. (2001) Environ. Mol. Mutagen. 38, 292-296], and in mammalian cells [Kanuri, M., Nechev, L. N., Tamura, P. J., Harris, C. M., Harris, T. M., and Lloyd, R. S. (2002) Chem. Res. Toxicol. 15, 1572-1580]. Rotation of the N1 deoxyinosine adduct into the high syn conformation may facilitate incorporation of dCTP via Hoogsteen-type templating with deoxyinosine, thus generating A-to-G mutations.

About this Structure

Full crystallographic information is available from OCA.

Reference

Structure of an oligodeoxynucleotide containing a butadiene oxide-derived N1 beta-hydroxyalkyl deoxyinosine adduct in the human N-ras codon 61 sequence., Scholdberg TA, Merritt WK, Dean SM, Kowalcyzk A, Harris CM, Harris TM, Rizzo CJ, Lloyd RS, Stone MP, Biochemistry. 2005 Mar 8;44(9):3327-37. PMID:15736943 Page seeded by OCA on Sat May 3 10:49:21 2008

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