1dnf

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[[Image:1dnf.jpg|left|200px]]
[[Image:1dnf.jpg|left|200px]]
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{{Structure
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|PDB= 1dnf |SIZE=350|CAPTION= <scene name='initialview01'>1dnf</scene>, resolution 1.500&Aring;
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The line below this paragraph, containing "STRUCTURE_1dnf", 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=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=UFP:5-FLUORO-2&#39;-DEOXYURIDINE-5&#39;-MONOPHOSPHATE'>UFP</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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or leave the SCENE parameter empty for the default display.
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|GENE=
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|DOMAIN=
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{{STRUCTURE_1dnf| PDB=1dnf | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1dnf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dnf OCA], [http://www.ebi.ac.uk/pdbsum/1dnf PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1dnf RCSB]</span>
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}}
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'''EFFECTS OF 5-FLUOROURACIL/GUANINE WOBBLE BASE PAIRS IN Z-DNA. MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGFG)'''
'''EFFECTS OF 5-FLUOROURACIL/GUANINE WOBBLE BASE PAIRS IN Z-DNA. MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGFG)'''
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==About this Structure==
==About this Structure==
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1DNF 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=1DNF OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DNF OCA].
==Reference==
==Reference==
Effects of 5-fluorouracil/guanine wobble base pairs in Z-DNA: molecular and crystal structure of d(CGCGFG)., Coll M, Saal D, Frederick CA, Aymami J, Rich A, Wang AH, Nucleic Acids Res. 1989 Feb 11;17(3):911-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/2922276 2922276]
Effects of 5-fluorouracil/guanine wobble base pairs in Z-DNA: molecular and crystal structure of d(CGCGFG)., Coll M, Saal D, Frederick CA, Aymami J, Rich A, Wang AH, Nucleic Acids Res. 1989 Feb 11;17(3):911-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/2922276 2922276]
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[[Category: Protein complex]]
 
[[Category: Aymami, J.]]
[[Category: Aymami, J.]]
[[Category: Coll, M.]]
[[Category: Coll, M.]]
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[[Category: Saal, D.]]
[[Category: Saal, D.]]
[[Category: Wang, A H.J.]]
[[Category: Wang, A H.J.]]
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[[Category: double helix]]
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[[Category: Double helix]]
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[[Category: mismatched]]
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[[Category: Mismatched]]
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[[Category: modified]]
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[[Category: Modified]]
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[[Category: z-dna]]
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[[Category: Z-dna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 14:03:04 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 19:44:59 2008''
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Revision as of 11:03, 2 May 2008

Image:1dnf.jpg

Template:STRUCTURE 1dnf

EFFECTS OF 5-FLUOROURACIL/GUANINE WOBBLE BASE PAIRS IN Z-DNA. MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGFG)


Overview

The chemotherapeutic agent 5-fluorouracil is a DNA base analogue which is known to incorporate into DNA in vivo. We have solved the structure of the oligonucleotide d(CGCGFG), where F is 5-fluorouracil (5FU). The DNA hexamer crystallizes in the Z-DNA conformation at two pH values with the 5FU forming a wobble base pair with guanine in both crystal forms. No evidence of the enol or ionized form of 5FU is found under either condition. The crystals diffracted X-rays to a resolution of 1.5 A and their structures have been refined to R-factors of 20.0% and 17.2%, respectively, for the pH = 7.0 and pH = 9.0 forms. By comparing this structure to that of d(CGCGCG) and d(CGCGTG), we were able to demonstrate that the backbone conformation of d(CGCGFG) is similar to that of the archetypal Z-DNA. The two F-G wobble base pairs in the duplex are structurally similar to the T-G base pairs both with respect to the DNA helix itself and its interactions with solvent molecules. In both cases water molecules associated with the wobble base pairs bridge between the bases and stabilize the structure. The fluorine in the 5FU base is hydrophobic and is not hydrogen bonded to any solvent molecules.

About this Structure

Full crystallographic information is available from OCA.

Reference

Effects of 5-fluorouracil/guanine wobble base pairs in Z-DNA: molecular and crystal structure of d(CGCGFG)., Coll M, Saal D, Frederick CA, Aymami J, Rich A, Wang AH, Nucleic Acids Res. 1989 Feb 11;17(3):911-23. PMID:2922276 Page seeded by OCA on Fri May 2 14:03:04 2008

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