This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1k8l

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
-
[[Image:1k8l.gif|left|200px]]
+
{{Seed}}
 +
[[Image:1k8l.png|left|200px]]
<!--
<!--
Line 9: Line 10:
{{STRUCTURE_1k8l| PDB=1k8l | SCENE= }}
{{STRUCTURE_1k8l| PDB=1k8l | SCENE= }}
-
'''XBY6: An analog of CK14 containing 6 dithiophosphate groups'''
+
===XBY6: An analog of CK14 containing 6 dithiophosphate groups===
-
==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=1K8L OCA].
+
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K8L OCA].
==Reference==
==Reference==
Line 34: Line 38:
[[Category: Phosphorodithioate]]
[[Category: Phosphorodithioate]]
[[Category: Xby6]]
[[Category: Xby6]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 22:26:14 2008''
+
 
 +
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 09:56:53 2008''

Revision as of 06:56, 2 July 2008

Image:1k8l.png

Template:STRUCTURE 1k8l

XBY6: An analog of CK14 containing 6 dithiophosphate groups

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 09:56:53 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1k8l"
Personal tools