3gs1: Difference between revisions

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{{Seed}}
[[Image:3gs1.jpg|left|200px]]


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==An all-RNA Hairpin Ribozyme with mutation A38N1dA==
The line below this paragraph, containing "STRUCTURE_3gs1", creates the "Structure Box" on the page.
<StructureSection load='3gs1' size='340' side='right'caption='[[3gs1]], [[Resolution|resolution]] 2.85&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3gs1]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GS1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GS1 FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.85&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene>, <scene name='pdbligand=S9L:2-[2-(2-HYDROXYETHOXY)ETHOXY]ETHYL+DIHYDROGEN+PHOSPHATE'>S9L</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_3gs1|  PDB=3gs1  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3gs1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gs1 OCA], [https://pdbe.org/3gs1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gs1 RCSB], [https://www.ebi.ac.uk/pdbsum/3gs1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gs1 ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The hairpin ribozyme is a small, noncoding RNA (ncRNA) that catalyzes a site-specific phosphodiester bond cleavage reaction. Prior biochemical and structural analyses pinpointed the amidine moiety of base Ade38 as a key functional group in catalysis, but base changes designed to probe function resulted in localized misfolding of the active site. To define the requirements for chemical activity using a conservative modification, we synthesized and incorporated N1-deazaadenosine into the full-length ribozyme construct. This single-atom variant severely impairs activity, although the active-site fold remains intact in the accompanying crystal structures. The results demonstrate the essentiality of the imino moiety as well as the importance of its interaction with the substrate in the precatalytic and transition-state conformations. This work demonstrates the efficacy of single-atom approaches in the analysis of ncRNA structure-function relationships.


===An all-RNA Hairpin Ribozyme with mutation A38N1dA===
Identification of an Imino Group Indispensable for Cleavage by a Small Ribozyme.,Spitale RC, Volpini R, Heller MG, Krucinska J, Cristalli G, Wedekind JE J Am Chem Soc. 2009 Apr 8. PMID:19354216<ref>PMID:19354216</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3gs1" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_19354216}}, adds the Publication Abstract to the page
*[[Ribozyme 3D structures|Ribozyme 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 19354216 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_19354216}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
3GS1 is a 4 chains structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GS1 OCA].
[[Category: Cristalli G]]
 
[[Category: Heller MG]]
==Reference==
[[Category: Krucinska J]]
<ref group="xtra">PMID:19354216</ref><references group="xtra"/>
[[Category: Spitale RC]]
[[Category: Cristalli, G.]]
[[Category: Volpini R]]
[[Category: Heller, M G.]]
[[Category: Wedekind JE]]
[[Category: Krucinska, J.]]
[[Category: Spitale, R C.]]
[[Category: Volpini, R.]]
[[Category: Wedekind, J E.]]
[[Category: Hairpin ribozyme]]
[[Category: N1-deazaadenosine]]
[[Category: Ribozyme]]
[[Category: Rna]]
 
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