1d80: Difference between revisions
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'''CRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATION''' | {{Structure | ||
|PDB= 1d80 |SIZE=350|CAPTION= <scene name='initialview01'>1d80</scene>, resolution 2.200Å | |||
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'''CRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATION''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1D80 is a [ | 1D80 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=1D80 OCA]. | ||
==Reference== | ==Reference== | ||
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:// | 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://www.ncbi.nlm.nih.gov/pubmed/8430089 8430089] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Edwards, K J.]] | [[Category: Edwards, K J.]] | ||
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[[Category: mismatched]] | [[Category: mismatched]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 10:34:15 2008'' | ||
Revision as of 11:34, 20 March 2008
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CRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATION
OverviewOverview
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.
About this StructureAbout this Structure
1D80 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
ReferenceReference
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:8430089
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