1db6: Difference between revisions

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[[Image:1db6.~~gif~~|left|200px]]

[[Image:1db6.png|left|200px]]

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~~'''~~SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE~~'''~~

===SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE===

~~==Overview==~~

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The ~~structure of a DNA aptamer~~, ~~which was selected for specific binding~~ to ~~arginine, was determined using NMR spectroscopy. The sequence forms a hairpin loop, with residues important for binding occurring in~~ the ~~loop region~~. ~~Binding of argininamide induces formation of one Watson-Crick and two non-Watson-Crick base pairs, which facilitate generation of a binding pocket~~. ~~The specificity for arginine seems to arise from contacts between the guanidino end of the arginine and phosphates~~, ~~with atoms positioned by the shape of the pocket. Complex binding kinetics are observed suggesting that there~~ is ~~a slow interconversion of two forms of the DNA, which have different binding affinities. These data provide information on~~ the ~~process of adaptive recognition of a ligand by an aptamer~~.

The line below this paragraph, {{ABSTRACT_PUBMED_10653638}}, adds the Publication Abstract to the page

(as it appears on PubMed at http://www.pubmed.gov), where 10653638 is the PubMed ID number.

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==About this Structure==

Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DB6 OCA].

Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DB6 OCA].

==Reference==

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[[Category: Selex]]

[[Category: Single-strand]]

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri May 2 13~~:39:08 2008''

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 22:46:23 2008''

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-[[Image:1db6.gif|left|200px]]
+{{Seed}}
+[[Image:1db6.png|left|200px]]
 <!--
@@ Line 9: / Line 10: @@
 {{STRUCTURE_1db6|  PDB=1db6  |  SCENE=  }}
-'''SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE'''
+===SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE===
-==Overview==
+<!--
-The structure of a DNA aptamer, which was selected for specific binding to arginine, was determined using NMR spectroscopy. The sequence forms a hairpin loop, with residues important for binding occurring in the loop region. Binding of argininamide induces formation of one Watson-Crick and two non-Watson-Crick base pairs, which facilitate generation of a binding pocket. The specificity for arginine seems to arise from contacts between the guanidino end of the arginine and phosphates, with atoms positioned by the shape of the pocket. Complex binding kinetics are observed suggesting that there is a slow interconversion of two forms of the DNA, which have different binding affinities. These data provide information on the process of adaptive recognition of a ligand by an aptamer.
+The line below this paragraph, {{ABSTRACT_PUBMED_10653638}}, adds the Publication Abstract to the page
+(as it appears on PubMed at http://www.pubmed.gov), where 10653638 is the PubMed ID number.
+-->
+{{ABSTRACT_PUBMED_10653638}}
 ==About this Structure==
-Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DB6 OCA].
+Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DB6 OCA].
 ==Reference==
@@ Line 31: / Line 35: @@
 [[Category: Selex]]
 [[Category: Single-strand]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 13:39:08 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 22:46:23 2008''