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223d

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[[Image:223d.gif|left|200px]]<br /><applet load="223d" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="223d, resolution 1.700&Aring;" />
 
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'''DIRECT OBSERVATION OF TWO BASE-PAIRING MODES OF A CYTOSINE-THYMINE ANALOGUE WITH GUANINE IN A DNA Z-FORM DUPLEX: SIGNIFICANCE FOR BASE ANALOGUE MUTAGENESIS'''<br />
 
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==Overview==
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==DIRECT OBSERVATION OF TWO BASE-PAIRING MODES OF A CYTOSINE-THYMINE ANALOGUE WITH GUANINE IN A DNA Z-FORM DUPLEX: SIGNIFICANCE FOR BASE ANALOGUE MUTAGENESIS==
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The pyrimidine nucleobase analogue 6H,8H-3,4-dihydropyrimido[4,5-c]- [1,2]oxazin-7-one (P) is a mimic both of cytosine and thymine, since it can form stable hydrogen-bonded base-pairs with either guanine or adenine. To investigate the geometric properties of pairing with guanine in a DNA double helix, the structure of d(CGCGPG)2 has been determined by single crystal X-ray analysis. The oligonucleotide crystallised as a left-handed Z-DNA duplex in the orthorhombic space group P2(1)2(1)2(1) with cell dimensions a = 18.23 A, b = 30.63 A, c = 43.78 A. Refinement using NUCLSQ with 51 water molecules included in the final model converged at R = 0.179 (Rw = 0.159) for 2798 reflections (F &gt; 2 sigma (F)) in the range 8 A to 1.7 A. Remarkably, the two P.G pairs in the hexamer duplex are different: Watson-Crick and wobble types separately illustrate both cytosine-like and thymine-like behaviour. The result suggests that mutagenesis experiments involving P and other analogues which display pronounced base-pairing ambivalence can be used to examine the structural basis of substrate discrimination by polymerases that is essential to accurate genetic replication.
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<StructureSection load='223d' size='340' side='right'caption='[[223d]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[223d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=223D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=223D FirstGlance]. <br>
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223D 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=223D OCA].
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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]] 1.7&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C46:6H,8H-3,4-DIHYDROPYRIMIDO[4,5-C][1,2]OXAZIN-7-0NE(CYTIDINE)-5-MONOPHOSPHATE'>C46</scene></td></tr>
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==Reference==
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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=223d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=223d OCA], [https://pdbe.org/223d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=223d RCSB], [https://www.ebi.ac.uk/pdbsum/223d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=223d ProSAT]</span></td></tr>
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Direct observation of two base-pairing modes of a cytosine-thymine analogue with guanine in a DNA Z-form duplex: significance for base analogue mutagenesis., Moore MH, Van Meervelt L, Salisbury SA, Lin PK, Brown DM, J Mol Biol. 1995 Sep 1;251(5):665-73. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7666418 7666418]
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</table>
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[[Category: Protein complex]]
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__TOC__
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[[Category: Brown, D M.]]
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</StructureSection>
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[[Category: Lin, P Kong Thoo.]]
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[[Category: Large Structures]]
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[[Category: Meervelt, L Van.]]
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[[Category: Brown DM]]
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[[Category: Moore, M H.]]
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[[Category: Kong Thoo Lin P]]
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[[Category: Salisbury, S A.]]
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[[Category: Moore MH]]
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[[Category: double helix]]
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[[Category: Salisbury SA]]
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[[Category: modified]]
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[[Category: Van Meervelt L]]
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[[Category: z-dna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:21:14 2008''
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Current revision

DIRECT OBSERVATION OF TWO BASE-PAIRING MODES OF A CYTOSINE-THYMINE ANALOGUE WITH GUANINE IN A DNA Z-FORM DUPLEX: SIGNIFICANCE FOR BASE ANALOGUE MUTAGENESIS

PDB ID 223d

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