2p8d: Difference between revisions

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[[Image:2p8d.jpg|left|200px]]<br /><applet load="2p8d" size="350" color="white" frame="true" align="right" spinBox="true"

caption="2p8d" />

caption="2p8d, resolution 1.90Å" />

''''''<br />

'''The Structure of the Dickerson Sequence with an Incorporated CeNA Residue'''<br />

==Overview==

Cyclohexene nucleic acids (CeNA), which are characterized by the presence, of a cyclohexene moiety instead of a natural (deoxy)ribose sugar, are, known to increase the thermal and enzymatic stability when incorporated in, RNA oligonucleotides. As it has been demonstrated that even a single, cyclohexenyl nucleoside, when incorporated in an oligonucleotide, can have, a profound effect on the biological activity of the oligonucleotide, further research is warranted to study the complex of such, oligonucleotides with target proteins. In order to analyse the influence, of CeNA residues onto the helix conformation and hydration of natural, nucleic acid structures, a cyclohexenyl-adenine building block (xAr) was, incorporated into the Dickerson sequence CGCGA(xAr)TTCGCG. The crystal, structure of this sequence determined to a resolution of 1.90 A. The, global helix belongs to the B-type family and shows a water spine, which, is partially broken up by the apolar cyclohexene residue. The cyclohexene, ring adopts the (2)E-conformation allowing a better incorporation of the, residue in the dodecamer sequence. The crystal packing is stabilized by, cobalt hexamine residues and belongs to space group P222(1), never before, reported for nucleic acids.

==About this Structure==

is a [http://en.wikipedia.org/wiki/~~Protein_complex 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= OCA].

2P8D is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NCO:'>NCO</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Known structural/functional Sites: <scene name='pdbsite=AC1:Xar+Binding+Site+For+Residue+A+6'>AC1</scene>, <scene name='pdbsite=AC2:Xar+Binding+Site+For+Residue+B+6'>AC2</scene>, <scene name='pdbsite=AC3:Nco+Binding+Site+For+Residue+B+101'>AC3</scene>, <scene name='pdbsite=AC4:Nco+Binding+Site+For+Residue+B+102'>AC4</scene> and <scene name='pdbsite=AC5:Nco+Binding+Site+For+Residue+B+103'>AC5</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P8D OCA].

[[Category: ~~Protein complex~~]]

==Reference==

Influence of the incorporation of a cyclohexenyl nucleic acid (CeNA) residue onto the sequence d(CGCGAATTCGCG)., Robeyns K, Herdewijn P, Van Meervelt L, Nucleic Acids Res. 2007 Dec 26;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18160414 18160414]

[[Category: Single protein]]

[[Category: Meervelt, L.Van.]]

[[Category: Robeyns, K.]]

[[Category: NCO]]

[[Category: cena]]

[[Category: dna]]

[[Category: sugar modification]]

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 6 15:34:42 2008''

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 6 17:23:12 2008''

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@@ Line 1: / Line 1: @@
 [[Image:2p8d.jpg|left|200px]]<br /><applet load="2p8d" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="2p8d" />
+caption="2p8d, resolution 1.90&Aring;" />
-''''''<br />
+'''The Structure of the Dickerson Sequence with an Incorporated CeNA Residue'''<br />
+==Overview==
+Cyclohexene nucleic acids (CeNA), which are characterized by the presence, of a cyclohexene moiety instead of a natural (deoxy)ribose sugar, are, known to increase the thermal and enzymatic stability when incorporated in, RNA oligonucleotides. As it has been demonstrated that even a single, cyclohexenyl nucleoside, when incorporated in an oligonucleotide, can have, a profound effect on the biological activity of the oligonucleotide, further research is warranted to study the complex of such, oligonucleotides with target proteins. In order to analyse the influence, of CeNA residues onto the helix conformation and hydration of natural, nucleic acid structures, a cyclohexenyl-adenine building block (xAr) was, incorporated into the Dickerson sequence CGCGA(xAr)TTCGCG. The crystal, structure of this sequence determined to a resolution of 1.90 A. The, global helix belongs to the B-type family and shows a water spine, which, is partially broken up by the apolar cyclohexene residue. The cyclohexene, ring adopts the (2)E-conformation allowing a better incorporation of the, residue in the dodecamer sequence. The crystal packing is stabilized by, cobalt hexamine residues and belongs to space group P222(1), never before, reported for nucleic acids.
 ==About this Structure==
- is a [http://en.wikipedia.org/wiki/Protein_complex 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= OCA].
+P8D is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NCO:'>NCO</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Known structural/functional Sites: <scene name='pdbsite=AC1:Xar+Binding+Site+For+Residue+A+6'>AC1</scene>, <scene name='pdbsite=AC2:Xar+Binding+Site+For+Residue+B+6'>AC2</scene>, <scene name='pdbsite=AC3:Nco+Binding+Site+For+Residue+B+101'>AC3</scene>, <scene name='pdbsite=AC4:Nco+Binding+Site+For+Residue+B+102'>AC4</scene> and <scene name='pdbsite=AC5:Nco+Binding+Site+For+Residue+B+103'>AC5</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P8D OCA].
-[[Category: Protein complex]]
+==Reference==
+Influence of the incorporation of a cyclohexenyl nucleic acid (CeNA) residue onto the sequence d(CGCGAATTCGCG)., Robeyns K, Herdewijn P, Van Meervelt L, Nucleic Acids Res. 2007 Dec 26;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18160414 18160414]
+[[Category: Single protein]]
+[[Category: Meervelt, L.Van.]]
+[[Category: Robeyns, K.]]
+[[Category: NCO]]
+[[Category: cena]]
+[[Category: dna]]
+[[Category: sugar modification]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb  6 15:34:42 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb  6 17:23:12 2008''