1d99: Difference between revisions

Revision as of 13:14, 21 February 2008

STRUCTURAL FEATURES AND HYDRATION OF A DODECAMER DUPLEX CONTAINING TWO C.A MISPAIRS

OverviewOverview

X-ray diffraction techniques have been used to characterise the crystal and molecular structure of the deoxyoligomer d(C-G-C-A-A-A-T-T-C-G-C-G) at 2.5A resolution. The final R factor is 0.19 with the location of 78 solvent molecules. The oligomer crystallises in a B-DNA type conformation with two strands coiled about each other to produce a duplex. This double helix consists of four A.T and six G.C Watson-Crick base pairs and two C.A mispairs. The mismatched base pairs adopt a "wobble" type structure with the cytosine displaced laterally into the major groove, the adenine into the minor groove. We have proposed that the two close contacts observed in the C.A pairing represent two hydrogen bonds one of which results from protonation of adenine. The mispairs are accommodated in the double helix with small adjustments in the conformation of the sugar-phosphate backbone. Details of the backbone conformation, base stacking interactions, thermal parameters and the hydration are now presented and compared with those of the native oligomer d(C-G-C-G-A-A-T-T-C-G-C-G) and with variations of this sequence containing G.T and G.A mispairs.

About this StructureAbout this Structure

1D99 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

ReferenceReference

Structural features and hydration of a dodecamer duplex containing two C.A mispairs., Hunter WN, Brown T, Kennard O, Nucleic Acids Res. 1987 Aug 25;15(16):6589-606. PMID:3627999

Page seeded by OCA on Thu Feb 21 12:14:19 2008

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OCA

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-[[Image:1d99.gif|left|200px]]<br /><applet load="1d99" size="450" color="white" frame="true" align="right" spinBox="true"
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 caption="1d99, resolution 2.500&Aring;" />
 '''STRUCTURAL FEATURES AND HYDRATION OF A DODECAMER DUPLEX CONTAINING TWO C.A MISPAIRS'''<br />
 ==Overview==
-X-ray diffraction techniques have been used to characterise the crystal, and molecular structure of the deoxyoligomer d(C-G-C-A-A-A-T-T-C-G-C-G) at, 2.5A resolution. The final R factor is 0.19 with the location of 78, solvent molecules. The oligomer crystallises in a B-DNA type conformation, with two strands coiled about each other to produce a duplex. This double, helix consists of four A.T and six G.C Watson-Crick base pairs and two C.A, mispairs. The mismatched base pairs adopt a "wobble" type structure with, the cytosine displaced laterally into the major groove, the adenine into, the minor groove. We have proposed that the two close contacts observed in, the C.A pairing represent two hydrogen bonds one of which results from, protonation of adenine. The mispairs are accommodated in the double helix, with small adjustments in the conformation of the sugar-phosphate, backbone. Details of the backbone conformation, base stacking, interactions, thermal parameters and the hydration are now presented and, compared with those of the native oligomer d(C-G-C-G-A-A-T-T-C-G-C-G) and, with variations of this sequence containing G.T and G.A mispairs.
+X-ray diffraction techniques have been used to characterise the crystal and molecular structure of the deoxyoligomer d(C-G-C-A-A-A-T-T-C-G-C-G) at 2.5A resolution. The final R factor is 0.19 with the location of 78 solvent molecules. The oligomer crystallises in a B-DNA type conformation with two strands coiled about each other to produce a duplex. This double helix consists of four A.T and six G.C Watson-Crick base pairs and two C.A mispairs. The mismatched base pairs adopt a "wobble" type structure with the cytosine displaced laterally into the major groove, the adenine into the minor groove. We have proposed that the two close contacts observed in the C.A pairing represent two hydrogen bonds one of which results from protonation of adenine. The mispairs are accommodated in the double helix with small adjustments in the conformation of the sugar-phosphate backbone. Details of the backbone conformation, base stacking interactions, thermal parameters and the hydration are now presented and compared with those of the native oligomer d(C-G-C-G-A-A-T-T-C-G-C-G) and with variations of this sequence containing G.T and G.A mispairs.
 ==About this Structure==
-D99 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=1D99 OCA].
+D99 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=1D99 OCA].
 ==Reference==
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 [[Category: Protein complex]]
 [[Category: Brown, T.]]
-[[Category: Hunter, W.N.]]
+[[Category: Hunter, W N.]]
 [[Category: Kennard, O.]]
 [[Category: b-dna]]
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 [[Category: mismatched]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:48:47 2007''
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