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New page: left|200px<br /><applet load="2nnw" size="450" color="white" frame="true" align="right" spinBox="true" caption="2nnw, resolution 2.7Å" /> '''Alternative conformat...
 
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[[Image:2nnw.jpg|left|200px]]<br /><applet load="2nnw" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2nnw, resolution 2.7&Aring;" />
'''Alternative conformations of Nop56/58-fibrillarin complex and implication for induced-fit assenly of box C/D RNPs'''<br />


==Overview==
==Alternative conformations of Nop56/58-fibrillarin complex and implication for induced-fit assenly of box C/D RNPs==
The Nop56/58-fibrillarin heterocomplex is a core protein complex of the, box C/D ribonucleoprotein particles that modify and process ribosomal, RNAs. The previous crystal structure of the Archaeoglobus fulgidus complex, revealed a symmetric dimer of two Nop56/58-fibrillarin complexes linked by, the coiled-coil domains of the Nop56/68 proteins. However, because the A., fulgidus Nop56/58 protein lacks some domains found in most other species, it was thought that the bipartite architecture of the heterocomplex was, not likely a general phenomenon. Here we report the crystal structure of, the Nop56/58-fibrillarin complex bound with methylation cofactor, S-adenosyl-L-methionine from Pyrococcus furiosus, at 2.7 A. The new, complex confirms the generality of the previously observed bipartite, arrangement. In addition however, the conformation of Nop56/58 in the new, structure differs substantially from that in the earlier structure. The, distinct conformations of Nop56/58 suggest potential flexibility in, Nop56/58. Computational normal mode analysis supports this view., Importantly, fibrillarin is repositioned within the two complexes. We, propose that hinge motion within Nop56/58 has important implications for, the possibility of simultaneously positioning two catalytic sites at the, two target sites of a bipartite box C/D guide RNA.
<StructureSection load='2nnw' size='340' side='right'caption='[[2nnw]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2nnw]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NNW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NNW FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#8491;</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=2nnw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nnw OCA], [https://pdbe.org/2nnw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nnw RCSB], [https://www.ebi.ac.uk/pdbsum/2nnw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nnw ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q8U4M1_PYRFU Q8U4M1_PYRFU]
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nn/2nnw_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=2nnw ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The Nop56/58-fibrillarin heterocomplex is a core protein complex of the box C/D ribonucleoprotein particles that modify and process ribosomal RNAs. The previous crystal structure of the Archaeoglobus fulgidus complex revealed a symmetric dimer of two Nop56/58-fibrillarin complexes linked by the coiled-coil domains of the Nop56/68 proteins. However, because the A. fulgidus Nop56/58 protein lacks some domains found in most other species, it was thought that the bipartite architecture of the heterocomplex was not likely a general phenomenon. Here we report the crystal structure of the Nop56/58-fibrillarin complex bound with methylation cofactor, S-adenosyl-L-methionine from Pyrococcus furiosus, at 2.7 A. The new complex confirms the generality of the previously observed bipartite arrangement. In addition however, the conformation of Nop56/58 in the new structure differs substantially from that in the earlier structure. The distinct conformations of Nop56/58 suggest potential flexibility in Nop56/58. Computational normal mode analysis supports this view. Importantly, fibrillarin is repositioned within the two complexes. We propose that hinge motion within Nop56/58 has important implications for the possibility of simultaneously positioning two catalytic sites at the two target sites of a bipartite box C/D guide RNA.


==About this Structure==
Alternative conformations of the archaeal Nop56/58-fibrillarin complex imply flexibility in box C/D RNPs.,Oruganti S, Zhang Y, Li H, Robinson H, Terns MP, Terns RM, Yang W, Li H J Mol Biol. 2007 Aug 31;371(5):1141-50. Epub 2007 Jun 15. PMID:17617422<ref>PMID:17617422</ref>
2NNW is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2NNW OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Alternative Conformations of the Archaeal Nop56/58-Fibrillarin Complex Imply Flexibility in Box C/D RNPs., Oruganti S, Zhang Y, Li H, Robinson H, Terns MP, Terns RM, Yang W, Li H, J Mol Biol. 2007 Aug 31;371(5):1141-50. Epub 2007 Jun 15. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17617422 17617422]
</div>
[[Category: Protein complex]]
<div class="pdbe-citations 2nnw" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Pyrococcus furiosus]]
[[Category: Pyrococcus furiosus]]
[[Category: Li, H.]]
[[Category: Li H]]
[[Category: Oruganti, S.]]
[[Category: Oruganti S]]
[[Category: Terns, M.P.]]
[[Category: Terns MP]]
[[Category: Terns, R.]]
[[Category: Terns R]]
[[Category: Zhang, Y.]]
[[Category: Zhang Y]]
[[Category: box c/d]]
[[Category: transferase]]
 
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Retrieved from "https://proteopedia.org/2nnw"