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.


4nfq

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (12:33, 1 March 2024) (edit) (undo)
 
(4 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Crystal Structure Analysis of the 16mer GCAGNCUUAAGUCUGC containing 7-triazolyl-8-aza-7-deazaadenosine==
==Crystal Structure Analysis of the 16mer GCAGNCUUAAGUCUGC containing 7-triazolyl-8-aza-7-deazaadenosine==
-
<StructureSection load='4nfq' size='340' side='right' caption='[[4nfq]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+
<StructureSection load='4nfq' size='340' side='right'caption='[[4nfq]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[4nfq]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NFQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NFQ FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[4nfq]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NFQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NFQ FirstGlance]. <br>
-
</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=7AT:1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-3-(1H-1,2,3-TRIAZOL-5-YL)-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-AMINE'>7AT</scene></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</td></tr>
-
<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4nfo|4nfo]], [[4nfp|4nfp]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7AT:1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-3-(1H-1,2,3-TRIAZOL-5-YL)-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-AMINE'>7AT</scene></td></tr>
-
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4nfq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nfq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4nfq RCSB], [http://www.ebi.ac.uk/pdbsum/4nfq PDBsum]</span></td></tr>
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4nfq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nfq OCA], [https://pdbe.org/4nfq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nfq RCSB], [https://www.ebi.ac.uk/pdbsum/4nfq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nfq ProSAT]</span></td></tr>
-
<table>
+
</table>
-
<div style="background-color:#fffaf0;">
+
-
== Publication Abstract from PubMed ==
+
-
Ribonucleoside analogues bearing terminal alkynes, including 7-ethynyl-8-aza-7-deazaadenosine (7-EAA), are useful for RNA modification applications. However, although alkyne- and triazole-bearing ribonucleosides are in widespread use, very little information is available on the impact of these modifications on RNA structure. By solving crystal structures for RNA duplexes containing these analogues, we show that, like adenosine, 7-EAA and a triazole derived from 7-EAA base pair with uridine and are well-accommodated within an A-form helix. We show that copper-catalyzed azide/alkyne cycloaddition (CuAAC) reactions with 7-EAA are sensitive to the RNA secondary structure context, with single-stranded sites reacting faster than duplex sites. 7-EAA and its triazole products are recognized in RNA template strands as adenosine by avian myoblastosis virus reverse transcriptase. In addition, 7-EAA in RNA is a substrate for an active site mutant of the RNA editing adenosine deaminase, ADAR2. These studies extend our understanding of the impact of these novel nucleobase analogues and set the stage for their use in probing RNA structure and metabolism.
+
-
 
+
-
Click Modification of RNA at Adenosine: Structure and Reactivity of 7-Ethynyl- and 7-Triazolyl-8-aza-7-deazaadenosine in RNA.,Phelps KJ, Ibarra-Soza JM, Tran K, Fisher AJ, Beal PA ACS Chem Biol. 2014 Jun 16. PMID:24896732<ref>PMID:24896732</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Beal, P A.]]
+
[[Category: Large Structures]]
-
[[Category: Fisher, A J.]]
+
[[Category: Beal PA]]
-
[[Category: Ibarra-Soza, J M.]]
+
[[Category: Fisher AJ]]
-
[[Category: Phelps, K J.]]
+
[[Category: Ibarra-Soza JM]]
-
[[Category: Zheng, Y.]]
+
[[Category: Phelps KJ]]
-
[[Category: 7-triazolyl-8-aza-7-deazaadenosine]]
+
[[Category: Zheng Y]]
-
[[Category: Position 5]]
+
-
[[Category: Rna]]
+
-
[[Category: Rna 16mer oligo]]
+

Current revision

Crystal Structure Analysis of the 16mer GCAGNCUUAAGUCUGC containing 7-triazolyl-8-aza-7-deazaadenosine

PDB ID 4nfq

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4nfq"
Personal tools