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1f69

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[[Image:1f69.gif|left|200px]]
 
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{{Structure
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==CRYSTAL STRUCTURE OF THE B-DNA HEXAMER GGCGCC WITH COBALT HEXAMINE==
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|PDB= 1f69 |SIZE=350|CAPTION= <scene name='initialview01'>1f69</scene>, resolution 2.6&Aring;
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<StructureSection load='1f69' size='340' side='right'caption='[[1f69]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> and <scene name='pdbligand=NCO:COBALT HEXAMMINE ION'>NCO</scene>
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<table><tr><td colspan='2'>[[1f69]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F69 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F69 FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#8491;</td></tr>
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|GENE=
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
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}}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1f69 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f69 OCA], [https://pdbe.org/1f69 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f69 RCSB], [https://www.ebi.ac.uk/pdbsum/1f69 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f69 ProSAT]</span></td></tr>
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</table>
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'''CRYSTAL STRUCTURE OF THE B-DNA HEXAMER GGCGCC WITH COBALT HEXAMINE'''
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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==Overview==
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[[Category: Eichman BF]]
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Cytosine methylation or bromination of the DNA sequence d(GGCGCC)2 is shown here to induce a novel extended and eccentric double helix, which we call E-DNA. Like B-DNA, E-DNA has a long helical rise and bases perpendicular to the helix axis. However, the 3'-endo sugar conformation gives the characteristic deep major groove and shallow minor groove of A-DNA. Also, if allowed to crystallize for a period of time longer than that yielding E-DNA, the methylated sequence forms standard A-DNA, suggesting that E-DNA is a kinetically trapped intermediate in the transition to A-DNA. Thus, the structures presented here chart a crystallographic pathway from B-DNA to A-DNA through the E-DNA intermediate in a single sequence. The E-DNA surface is highly accessible to solvent, with waters in the major groove sitting on exposed faces of the stacked nucleotides. We suggest that the geometry of the waters and the stacked base pairs would promote the spontaneous deamination of 5-methylcytosine in the transition mutation of dm5C-dG to dT-dA base pairs.
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[[Category: Ho PS]]
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[[Category: Vargason JM]]
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==About this Structure==
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1F69 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=1F69 OCA].
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==Reference==
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The extended and eccentric E-DNA structure induced by cytosine methylation or bromination., Vargason JM, Eichman BF, Ho PS, Nat Struct Biol. 2000 Sep;7(9):758-61. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10966645 10966645]
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[[Category: Protein complex]]
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[[Category: Eichman, B F.]]
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[[Category: Ho, P S.]]
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[[Category: Vargason, J M.]]
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[[Category: MG]]
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[[Category: NCO]]
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[[Category: b-dna]]
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[[Category: double helix]]
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[[Category: e-dna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:04:59 2008''
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Current revision

CRYSTAL STRUCTURE OF THE B-DNA HEXAMER GGCGCC WITH COBALT HEXAMINE

PDB ID 1f69

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