1k8n: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older editNewer edit →
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
Line 1: Line 1:
[[Image:1k8n.gif|left|200px]]
{{Seed}}
[[Image:1k8n.png|left|200px]]


<!--
<!--
Line 9: Line 10:
{{STRUCTURE_1k8n|  PDB=1k8n  |  SCENE=  }}  
{{STRUCTURE_1k8n|  PDB=1k8n  |  SCENE=  }}  


'''NMR STRUCTURE OF THE XBY2 DNA DUPLEX, AN ANALOG OF CK14 CONTAINING PHOSPHORODITHIOATE GROUPS AT C22 AND C24'''
===NMR STRUCTURE OF THE XBY2 DNA DUPLEX, AN ANALOG OF CK14 CONTAINING PHOSPHORODITHIOATE GROUPS AT C22 AND C24===




==Overview==
<!--  
A variety of monothio- and dithiosubstituted duplex aptamers targeting NF-kappaB have been synthesized and designed. The specificity and affinity of the dithioate aptamers of p50 and RelA(p65) NF-kappaB homodimers was determined by gel shift experiments. The NMR solution structures for several unmodified and dithioate backbone modified 14-base paired duplex aptamers have been determined by a hybrid, complete matrix (MORASS)/restrained molecular dynamics method. Structural perturbations of the dithioate substitutions support our hypothesis that the dithioate binds cations less tightly than phosphoryl groups. This increases the electrostatic repulsion across the B-form narrow minor groove and enlarges the minor groove, similar to that found in A-form duplexes. Structural analysis of modeled aptamer complexes with NF-kappaB homo- and heterodimers suggests that the dithioate backbone substitution can increase the aptamer's relative affinity to basic groups in proteins such as NF-kappaB by helping to "strip" the cations from the aptamer backbone.
The line below this paragraph, {{ABSTRACT_PUBMED_12642125}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 12642125 is the PubMed ID number.
-->
{{ABSTRACT_PUBMED_12642125}}


==About this Structure==
==About this Structure==
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K8N OCA].  
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K8N OCA].  


==Reference==
==Reference==
Line 36: Line 40:
[[Category: Xby2]]
[[Category: Xby2]]
[[Category: Xby6]]
[[Category: Xby6]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 22:26:18 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 09:57:02 2008''

Revision as of 06:57, 2 July 2008

File:1k8n.png

Template:STRUCTURE 1k8n

NMR STRUCTURE OF THE XBY2 DNA DUPLEX, AN ANALOG OF CK14 CONTAINING PHOSPHORODITHIOATE GROUPS AT C22 AND C24

Template:ABSTRACT PUBMED 12642125

About this Structure

Full experimental information is available from OCA.

Reference

Solution structure and design of dithiophosphate backbone aptamers targeting transcription factor NF-kappaB., Volk DE, Yang X, Fennewald SM, King DJ, Bassett SE, Venkitachalam S, Herzog N, Luxon BA, Gorenstein DG, Bioorg Chem. 2002 Dec;30(6):396-419. PMID:12642125

Page seeded by OCA on Wed Jul 2 09:57:02 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "https://proteopedia.org/index.php?title=1k8n&oldid=619645"