1omk: Difference between revisions

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[[Image:1omk.gif|left|200px]]<br /><applet load="1omk" size="~~450~~" color="white" frame="true" align="right" spinBox="true"

[[Image:1omk.gif|left|200px]]<br /><applet load="1omk" size="350" color="white" frame="true" align="right" spinBox="true"

caption="1omk, resolution 1.30Å" />

'''The Crystal Structure of d(CACG(5IU)G)'''<br />

==Overview==

The first antiviral nucleoside 5-iodo-2'-deoxyuridine (IDU) against herpes, simplex virus type 1 and type 2 is a thymidine analogue, i.e. the C5, methyl group is replaced by an I atom. The structure of the, self-complementary hexamer d[CACG(IDU)G] was determined by single-crystal, X-ray diffraction techniques. The orthorhombic crystals belong to space, group P2(1)2(1)2(1), with unit-cell parameters a = 18.16, b = 30.03, c =, 41.99 A. Refinement in the resolution range 20-1.3 A converged with a, final R1 = 0.167, including 43 water molecules and two cobalt hexammine, complexes. The incorporation of a large I atom has only minor consequences, for the overall structure as is noticed in the IDU.A base pairs, which are, of the common Watson-Crick type. To contribute to the still puzzling, mechanism of this historically important agent, details of base stacking, helical parameters, hydration etc. have been studied. A general scheme of, cobalt hexammine-binding modes in Z-DNA is provided, revealing similar, binding modes for the reported structure.

The first antiviral nucleoside 5-iodo-2'-deoxyuridine (IDU) against herpes simplex virus type 1 and type 2 is a thymidine analogue, i.e. the C5 methyl group is replaced by an I atom. The structure of the self-complementary hexamer d[CACG(IDU)G] was determined by single-crystal X-ray diffraction techniques. The orthorhombic crystals belong to space group P2(1)2(1)2(1), with unit-cell parameters a = 18.16, b = 30.03, c = 41.99 A. Refinement in the resolution range 20-1.3 A converged with a final R1 = 0.167, including 43 water molecules and two cobalt hexammine complexes. The incorporation of a large I atom has only minor consequences for the overall structure as is noticed in the IDU.A base pairs, which are of the common Watson-Crick type. To contribute to the still puzzling mechanism of this historically important agent, details of base stacking, helical parameters, hydration etc. have been studied. A general scheme of cobalt hexammine-binding modes in Z-DNA is provided, revealing similar binding modes for the reported structure.

==About this Structure==

1OMK is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with NCO as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://~~ispc~~.weizmann.ac.il/oca-bin/ocashort?id=1OMK OCA].

1OMK is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NCO:'>NCO</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OMK OCA].

==Reference==

Exploration of the influence of 5-iodo-2'-deoxyuridine incorporation on the structure of d[CACG(IDU)G]., Schuerman G, Van Hecke K, Van Meervelt L, Acta Crystallogr D Biol Crystallogr. 2003 Aug;59(Pt 8):1525-8. Epub 2003, Jul 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12876373 12876373]

[[Category: Protein complex]]

[[Category: Hecke, K.Van.]]

[[Category: Hecke, K Van.]]

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

[[Category: Meervelt, L Van.]]

[[Category: Schuerman, G.]]

[[Category: NCO]]

Line 19:

[[Category: z-dna]]

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@@ Line 1: / Line 1: @@
-[[Image:1omk.gif|left|200px]]<br /><applet load="1omk" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1omk.gif|left|200px]]<br /><applet load="1omk" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1omk, resolution 1.30&Aring;" />
 '''The Crystal Structure of d(CACG(5IU)G)'''<br />
 ==Overview==
-The first antiviral nucleoside 5-iodo-2'-deoxyuridine (IDU) against herpes, simplex virus type 1 and type 2 is a thymidine analogue, i.e. the C5, methyl group is replaced by an I atom. The structure of the, self-complementary hexamer d[CACG(IDU)G] was determined by single-crystal, X-ray diffraction techniques. The orthorhombic crystals belong to space, group P2(1)2(1)2(1), with unit-cell parameters a = 18.16, b = 30.03, c =, 41.99 A. Refinement in the resolution range 20-1.3 A converged with a, final R1 = 0.167, including 43 water molecules and two cobalt hexammine, complexes. The incorporation of a large I atom has only minor consequences, for the overall structure as is noticed in the IDU.A base pairs, which are, of the common Watson-Crick type. To contribute to the still puzzling, mechanism of this historically important agent, details of base stacking, helical parameters, hydration etc. have been studied. A general scheme of, cobalt hexammine-binding modes in Z-DNA is provided, revealing similar, binding modes for the reported structure.
+The first antiviral nucleoside 5-iodo-2'-deoxyuridine (IDU) against herpes simplex virus type 1 and type 2 is a thymidine analogue, i.e. the C5 methyl group is replaced by an I atom. The structure of the self-complementary hexamer d[CACG(IDU)G] was determined by single-crystal X-ray diffraction techniques. The orthorhombic crystals belong to space group P2(1)2(1)2(1), with unit-cell parameters a = 18.16, b = 30.03, c = 41.99 A. Refinement in the resolution range 20-1.3 A converged with a final R1 = 0.167, including 43 water molecules and two cobalt hexammine complexes. The incorporation of a large I atom has only minor consequences for the overall structure as is noticed in the IDU.A base pairs, which are of the common Watson-Crick type. To contribute to the still puzzling mechanism of this historically important agent, details of base stacking, helical parameters, hydration etc. have been studied. A general scheme of cobalt hexammine-binding modes in Z-DNA is provided, revealing similar binding modes for the reported structure.
 ==About this Structure==
-OMK is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with NCO as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1OMK OCA].
+OMK is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NCO:'>NCO</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OMK OCA].
 ==Reference==
 Exploration of the influence of 5-iodo-2'-deoxyuridine incorporation on the structure of d[CACG(IDU)G]., Schuerman G, Van Hecke K, Van Meervelt L, Acta Crystallogr D Biol Crystallogr. 2003 Aug;59(Pt 8):1525-8. Epub 2003, Jul 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12876373 12876373]
 [[Category: Protein complex]]
-[[Category: Hecke, K.Van.]]
+[[Category: Hecke, K Van.]]
-[[Category: Meervelt, L.Van.]]
+[[Category: Meervelt, L Van.]]
 [[Category: Schuerman, G.]]
 [[Category: NCO]]
@@ Line 19: / Line 19: @@
 [[Category: z-dna]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 01:06:36 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:19:22 2008''