1d80: Difference between revisions

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New page: left|200px<br /><applet load="1d80" size="450" color="white" frame="true" align="right" spinBox="true" caption="1d80, resolution 2.200Å" /> '''CRYSTAL STRUCTURE O...
 
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[[Image:1d80.gif|left|200px]]<br /><applet load="1d80" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1d80, resolution 2.200&Aring;" />
'''CRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATION'''<br />


==Overview==
==CRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATION==
The structure of the G.G mispaired dodecanucleotide d(CGCGAATTGGCG)2 has, been solved by x-ray crystallography and refined to an R factor of 18.8%, at 2.2 A resolution for 3513 reflections. The dodecamer crystallizes as a, B-type DNA double helix. It contains two G(anti).G(syn) base pairs--i.e., G-4/G-16(anti).G-21/G-9(syn). The Hoogsteen base pairing involves atoms, O-6 and N-7 of the guanine in the syn conformation with atoms N-1 and N-2, of the anti-paired purine. One G.G base pair has a bifurcated hydrogen, bond between G-4(N-1)...G-21(N-7) and G-4(N-1)...G-21(O-6). There is, little overall structural distortion of the double helix induced as a, consequence of the mispairing. The helical width is significantly, increased by comparison with the structure of the native duplex, and the, minor groove width in the 5'-AATT region is decreased. The G.G base, pairing induces high-BII phosphate conformations at residues G-9 and T-20, in addition to more normal BII conformations at G-10 and G-22. It is, suggested that these backbone aberrations provide signals for the facile, repairability of G.G mispairs in DNA.
<StructureSection load='1d80' size='340' side='right'caption='[[1d80]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1d80]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D80 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D80 FirstGlance]. <br>
1D80 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=1D80 OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
 
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d80 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d80 OCA], [https://pdbe.org/1d80 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d80 RCSB], [https://www.ebi.ac.uk/pdbsum/1d80 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d80 ProSAT]</span></td></tr>
==Reference==
</table>
Crystal structure of an oligonucleotide duplex containing G.G base pairs: influence of mispairing on DNA backbone conformation., Skelly JV, Edwards KJ, Jenkins TC, Neidle S, Proc Natl Acad Sci U S A. 1993 Feb 1;90(3):804-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8430089 8430089]
__TOC__
[[Category: Protein complex]]
</StructureSection>
[[Category: Edwards, K.J.]]
[[Category: Large Structures]]
[[Category: Jenkins, T.C.]]
[[Category: Edwards KJ]]
[[Category: Neidle, S.]]
[[Category: Jenkins TC]]
[[Category: Skelly, J.V.]]
[[Category: Neidle S]]
[[Category: b-dna]]
[[Category: Skelly JV]]
[[Category: double helix]]
[[Category: mismatched]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:42:16 2007''

Latest revision as of 09:50, 7 February 2024

CRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATIONCRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATION

Structural highlights

1d80 is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.2Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

1d80, resolution 2.20Å

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