1d81

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(New page: 200px<br /><applet load="1d81" size="450" color="white" frame="true" align="right" spinBox="true" caption="1d81, resolution 2.500&Aring;" /> '''THE CONFORMATIONAL ...)
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[[Image:1d81.gif|left|200px]]<br /><applet load="1d81" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1d81, resolution 2.500&Aring;" />
 
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'''THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR IN A SYNTHETIC DNA DODECAMER'''<br />
 
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==Overview==
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==THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR IN A SYNTHETIC DNA DODECAMER==
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A crystal structure analysis of the synthetic deoxydodecamer, d(CGCAAATTIGCG) which contains two adenosine.inosine (A.I) mispairs has, revealed that, in this sequence, the A.I base-pairs adopt a A(anti).I(syn), configuration. The refinement converged at R = 0.158 for 2004 reflections, with F greater than or equal to 2 sigma(F) in the range 7.0-2.5A for a, model consisting of the DNA duplex and 71 water molecules. A notable, feature of the structure is the presence of an almost complete spine of, hydration spanning the minor groove of the whole of the (AAATTI)2 core, region of the duplex. pH-dependent ultraviolet melting studies have, suggested that the base-pair observed in the crystal structure is, in, fact, a protonated AH+ (anti).I(syn) species and that the A.I base-pairs, in the sequence studied display the same conformational variability as A.G, mispairs in the sequence d(CGCAAATTGGCG). The AH+(anti).I(syn) base-pair, predominates below pH 6.5 and an A(anti).I(anti) mispair is the major, species present between pH 6.5 and 8.0. The protonated base-pairs are held, together by two hydrogen bonds one between N6(A) and O6(I) and the other, between N1(A) and N7(I). This second hydrogen bond is a direct result of, the protonation of the N1 of adenosine. The ultraviolet melting studies, indicate that the A(anti).I(anti) base-pair is more stable than the, A(anti).G(anti) base-pair but that the AH+(anti).I(syn) base pair is less, stable than its AH+(anti).G(syn) analogue. Possible reasons for this, observation are discussed.
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<StructureSection load='1d81' size='340' side='right'caption='[[1d81]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1d81]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D81 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D81 FirstGlance]. <br>
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1D81 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://ispc.weizmann.ac.il/oca-bin/ocashort?id=1D81 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]] 2.5&#8491;</td></tr>
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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=1d81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d81 OCA], [https://pdbe.org/1d81 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d81 RCSB], [https://www.ebi.ac.uk/pdbsum/1d81 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d81 ProSAT]</span></td></tr>
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==Reference==
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</table>
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The conformational variability of an adenosine.inosine base-pair in a synthetic DNA dodecamer., Leonard GA, Booth ED, Hunter WN, Brown T, Nucleic Acids Res. 1992 Sep 25;20(18):4753-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=1408788 1408788]
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__TOC__
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[[Category: Protein complex]]
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</StructureSection>
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[[Category: Booth, E.D.]]
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[[Category: Large Structures]]
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[[Category: Brown, T.]]
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[[Category: Booth ED]]
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[[Category: Hunter, W.N.]]
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[[Category: Brown T]]
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[[Category: Leonard, G.A.]]
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[[Category: Hunter WN]]
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[[Category: b-dna]]
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[[Category: Leonard GA]]
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[[Category: double helix]]
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[[Category: mismatched]]
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[[Category: modified]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:42:35 2007''
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THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR IN A SYNTHETIC DNA DODECAMER

PDB ID 1d81

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