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.


1d3x

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
-
[[Image:1d3x.gif|left|200px]]
+
{{Seed}}
 +
[[Image:1d3x.png|left|200px]]
<!--
<!--
Line 9: Line 10:
{{STRUCTURE_1d3x| PDB=1d3x | SCENE= }}
{{STRUCTURE_1d3x| PDB=1d3x | SCENE= }}
-
'''INTRAMOLECULAR DNA TRIPLEX, NMR, 10 STRUCTURES'''
+
===INTRAMOLECULAR DNA TRIPLEX, NMR, 10 STRUCTURES===
-
==Overview==
+
<!--
-
A DNA molecule was designed and synthesized with three octanucleotide stretches linked by two hexakis(ethylene glycol) chains to form an intramolecular triplex in solution. The structural data obtained from a series of NMR NOESY spectra yielded interproton distances, and COSY experiments provided dihedral angle information for analysis of deoxyribose ring pucker. Using distance geometry followed by simulated annealing with restrained molecular dynamics and relaxation matrix refinement, a well-refined ensemble of conformations was calculated. Although some NOE cross-peaks involving protons of the hexakis(ethylene glycol) linker could be identified, most could not be assigned and the conformations of the linkers were not determined. The deoxyribose conformations are predominantly of the S type, except for the protonated cytosine residues in the third strand which show hybrid N and S character. Overall, the duplex part of the molecule resembles a B-DNA double helix with the third strand bound in its major groove by Hoogsteen hydrogen bonds. This structure provides a basis for comparison with triplexes containing noncanonical or nonnatural nucleotides.
+
The line below this paragraph, {{ABSTRACT_PUBMED_9558314}}, adds the Publication Abstract to the page
 +
(as it appears on PubMed at http://www.pubmed.gov), where 9558314 is the PubMed ID number.
 +
-->
 +
{{ABSTRACT_PUBMED_9558314}}
==About this Structure==
==About this Structure==
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D3X OCA].
+
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D3X OCA].
==Reference==
==Reference==
Line 27: Line 31:
[[Category: Rna third strand]]
[[Category: Rna third strand]]
[[Category: Triplex]]
[[Category: Triplex]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 13:25:28 2008''
+
 
 +
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 22:21:05 2008''

Revision as of 19:21, 30 June 2008

Image:1d3x.png

Template:STRUCTURE 1d3x

INTRAMOLECULAR DNA TRIPLEX, NMR, 10 STRUCTURES

Template:ABSTRACT PUBMED 9558314

About this Structure

Full experimental information is available from OCA.

Reference

Solution structure of an intramolecular DNA triplex linked by hexakis(ethylene glycol) units: d(AGAGAGAA-(EG)6-TTCTCTCT-(EG)6-TCTCTCTT)., Tarkoy M, Phipps AK, Schultze P, Feigon J, Biochemistry. 1998 Apr 28;37(17):5810-9. PMID:9558314

Page seeded by OCA on Mon Jun 30 22:21:05 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1d3x"
Personal tools