1d80: Difference between revisions

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[[Image:1d80.gif|left|200px]]<br /><applet load="1d80" size="~~450~~" color="white" frame="true" align="right" spinBox="true"

[[Image:1d80.gif|left|200px]]<br /><applet load="1d80" size="350" color="white" frame="true" align="right" spinBox="true"

caption="1d80, resolution 2.200Å" />

'''CRYSTAL STRUCTURE OF AN OLIGONUCLEOTIDE DUPLEX CONTAINING G.G BASE-PAIRS: THE INFLUENCE OF MISPAIRING ON DNA BACKBONE CONFORMATION'''<br />

==Overview==

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.

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 Structure==

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].

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://oca.weizmann.ac.il/oca-bin/ocashort?id=1D80 OCA].

==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://ispc.weizmann.ac.il//pmbin/getpm?pmid=8430089 8430089]

[[Category: Protein complex]]

[[Category: Edwards, K.J.]]

[[Category: Edwards, K J.]]

[[Category: Jenkins, T.C.]]

[[Category: Jenkins, T C.]]

[[Category: Neidle, S.]]

[[Category: Skelly, J.V.]]

[[Category: Skelly, J V.]]

[[Category: b-dna]]

[[Category: double helix]]

[[Category: mismatched]]

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@@ Line 1: / Line 1: @@
-[[Image:1d80.gif|left|200px]]<br /><applet load="1d80" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1d80.gif|left|200px]]<br /><applet load="1d80" size="350" 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==
-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.
+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 Structure==
-D80 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].
+D80 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=1D80 OCA].
 ==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://ispc.weizmann.ac.il//pmbin/getpm?pmid=8430089 8430089]
 [[Category: Protein complex]]
-[[Category: Edwards, K.J.]]
+[[Category: Edwards, K J.]]
-[[Category: Jenkins, T.C.]]
+[[Category: Jenkins, T C.]]
 [[Category: Neidle, S.]]
-[[Category: Skelly, J.V.]]
+[[Category: Skelly, J V.]]
 [[Category: b-dna]]
 [[Category: double helix]]
 [[Category: mismatched]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:42:16 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:14:00 2008''