2nub

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{{Seed}}
 
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[[Image:2nub.png|left|200px]]
 
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==Structure of Aquifex aeolicus Argonuate==
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The line below this paragraph, containing "STRUCTURE_2nub", creates the "Structure Box" on the page.
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<StructureSection load='2nub' size='340' side='right'caption='[[2nub]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2nub]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NUB FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.2&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2nub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nub OCA], [https://pdbe.org/2nub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nub RCSB], [https://www.ebi.ac.uk/pdbsum/2nub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nub ProSAT]</span></td></tr>
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{{STRUCTURE_2nub| PDB=2nub | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/O67434_AQUAE O67434_AQUAE]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nu/2nub_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2nub ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Gene silencing mediated by RNA interference requires the sequence-specific recognition of target mRNA by the endonuclease Argonaute, the primary enzymatic component of the RNA-induced silencing complex. We report the crystal structure of Aquifex aeolicus Argonaute, refined at 3.2A resolution. Relative to recent Argonaute structures, a 24 degrees reorientation of the PAZ domain in our structure opens a basic cleft between the N-terminal and PAZ domains, exposing the guide strand binding pocket of PAZ. This rearrangement leads to a branched, Y-shaped system of grooves that extends through the molecule and merges in a central channel containing the catalytic residues. A 5.5-ns molecular dynamics simulation of Argonaute shows a strong tendency of the PAZ and N-terminal domains to be mobile. Binding of single-stranded DNA to Argonaute monitored by total internal reflection fluorescence spectroscopy shows biphasic kinetics, also indicative of domain rearrangement upon DNA binding. Conformational rearrangement of the PAZ domain may therefore be critical for the catalytic cycle of Argonaute and the RNA-induced silencing complex.
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===Structure of Aquifex aeolicus Argonuate===
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Structure of Aquifex aeolicus argonaute highlights conformational flexibility of the PAZ domain as a potential regulator of RNA-induced silencing complex function.,Rashid UJ, Paterok D, Koglin A, Gohlke H, Piehler J, Chen JC J Biol Chem. 2007 May 4;282(18):13824-32. Epub 2006 Nov 27. PMID:17130125<ref>PMID:17130125</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2nub" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_17130125}}, adds the Publication Abstract to the page
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*[[Argonaute 3D structures|Argonaute 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 17130125 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_17130125}}
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__TOC__
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</StructureSection>
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==About this Structure==
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2NUB is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUB OCA].
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==Reference==
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<ref group="xtra">PMID:17130125</ref><references group="xtra"/>
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[[Category: Aquifex aeolicus]]
[[Category: Aquifex aeolicus]]
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[[Category: Chen, J C.H.]]
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[[Category: Large Structures]]
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[[Category: Gohlke, H.]]
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[[Category: Chen JC-H]]
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[[Category: Koglin, A.]]
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[[Category: Gohlke H]]
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[[Category: Paterok, D.]]
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[[Category: Koglin A]]
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[[Category: Piehler, J.]]
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[[Category: Paterok D]]
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[[Category: Rashid, U J.]]
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[[Category: Piehler J]]
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[[Category: Argonaute]]
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[[Category: Rashid UJ]]
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[[Category: Ribonuclease]]
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[[Category: Risc]]
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[[Category: Rnai]]
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[[Category: Rnaseh]]
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[[Category: Signaling protein]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 22:03:39 2009''
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Current revision

Structure of Aquifex aeolicus Argonuate

PDB ID 2nub

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OCA

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