121d: Difference between revisions

Revision as of 12:37, 21 February 2008

MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN

OverviewOverview

The molecular structure of the complex between the minor groove binding drug netropsin and the dodecamer d(CGCAAATTTGCG) has been solved and refined by X-ray diffraction analysis to an R-factor of 19.8% and 2.2-A resolution. The drug lies in the narrow minor groove of the B-DNA fragment, covering five of the six A.T base pairs (from A5.T20 to T9.A16). The long six A.T base pair tract allows the drug to bind in a position that optimizes its contacts with the DNA, establishing hydrogen bonds with O2 of thymines and N3 of adenines. The DNA molecule shows a high propeller twist only at the A6.T19 step of the A-tract. Two three-centered hydrogen bonds are observed in the major groove at half of the A-tract.

About this StructureAbout this Structure

121D is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.

ReferenceReference

Molecular structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor groove binding drug netropsin., Tabernero L, Verdaguer N, Coll M, Fita I, van der Marel GA, van Boom JH, Rich A, Aymami J, Biochemistry. 1993 Aug 24;32(33):8403-10. PMID:8395202

Page seeded by OCA on Thu Feb 21 11:37:48 2008

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OCA

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-[[Image:121d.jpg|left|200px]]<br /><applet load="121d" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:121d.jpg|left|200px]]<br /><applet load="121d" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="121d, resolution 2.200&Aring;" />
 '''MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN'''<br />
 ==Overview==
-The molecular structure of the complex between the minor groove binding, drug netropsin and the dodecamer d(CGCAAATTTGCG) has been solved and, refined by X-ray diffraction analysis to an R-factor of 19.8% and 2.2-A, resolution. The drug lies in the narrow minor groove of the B-DNA, fragment, covering five of the six A.T base pairs (from A5.T20 to T9.A16)., The long six A.T base pair tract allows the drug to bind in a position, that optimizes its contacts with the DNA, establishing hydrogen bonds with, O2 of thymines and N3 of adenines. The DNA molecule shows a high propeller, twist only at the A6.T19 step of the A-tract. Two three-centered hydrogen, bonds are observed in the major groove at half of the A-tract.
+The molecular structure of the complex between the minor groove binding drug netropsin and the dodecamer d(CGCAAATTTGCG) has been solved and refined by X-ray diffraction analysis to an R-factor of 19.8% and 2.2-A resolution. The drug lies in the narrow minor groove of the B-DNA fragment, covering five of the six A.T base pairs (from A5.T20 to T9.A16). The long six A.T base pair tract allows the drug to bind in a position that optimizes its contacts with the DNA, establishing hydrogen bonds with O2 of thymines and N3 of adenines. The DNA molecule shows a high propeller twist only at the A6.T19 step of the A-tract. Two three-centered hydrogen bonds are observed in the major groove at half of the A-tract.
 ==About this Structure==
-D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with NT as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=121D OCA].
+D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NT:'>NT</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=121D OCA].
 ==Reference==
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 [[Category: Protein complex]]
 [[Category: Aymami, J.]]
-[[Category: Boom, J.H.Van.]]
+[[Category: Boom, J H.Van.]]
 [[Category: Coll, M.]]
 [[Category: Fita, I.]]
-[[Category: Marel, G.A.Van.Der.]]
+[[Category: Marel, G A.Van Der.]]
 [[Category: Rich, A.]]
 [[Category: Tabernero, L.]]
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 [[Category: double helix]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sat Nov 24 21:48:11 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:37:48 2008''