2c37

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[[Image:2c37.gif|left|200px]]<br /><applet load="2c37" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2c37, resolution 2.80&Aring;" />
 
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'''RNASE PH CORE OF THE ARCHAEAL EXOSOME IN COMPLEX WITH U8 RNA'''<br />
 
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==Overview==
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==RNASE PH CORE OF THE ARCHAEAL EXOSOME IN COMPLEX WITH U8 RNA==
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The exosome is a macromolecular complex that plays fundamental roles in, the biogenesis and turnover of a large number of RNA species. Here we, report the crystal structures of the Rrp41-Rrp42 core complex of the S., solfataricus exosome bound to short single-stranded RNAs and to ADP. The, RNA binding cleft recognizes four nucleotides in a sequence-unspecific, manner, mainly by electrostatic interactions with the phosphate groups., Interactions at the 2' hydroxyls of the sugars provide specificity for RNA, over DNA. The structures show both the bound substrate and the cleaved, product of the reaction, suggesting a catalytic mechanism for the 3'-5', phosphorolytic activity of the exosome.
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<StructureSection load='2c37' size='340' side='right'caption='[[2c37]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2c37]] is a 24 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus Saccharolobus solfataricus]. The February 2007 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Exosomes'' by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2007_2 10.2210/rcsb_pdb/mom_2007_2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C37 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2C37 FirstGlance]. <br>
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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]] 2.8&#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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=RP5:5-O-PHOSPHONO-BETA-D-RIBOFURANOSE'>RP5</scene>, <scene name='pdbligand=U5P:URIDINE-5-MONOPHOSPHATE'>U5P</scene></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=2c37 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2c37 OCA], [https://pdbe.org/2c37 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2c37 RCSB], [https://www.ebi.ac.uk/pdbsum/2c37 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2c37 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RRP42_SACS2 RRP42_SACS2] Non-catalytic component of the exosome, which is a complex involved in RNA degradation. Contributes to the structuring of the Rrp41 active site.[HAMAP-Rule:MF_00622]<ref>PMID:15951817</ref> <ref>PMID:20488184</ref>
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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/c3/2c37_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=2c37 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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The exosome is a macromolecular complex that plays fundamental roles in the biogenesis and turnover of a large number of RNA species. Here we report the crystal structures of the Rrp41-Rrp42 core complex of the S. solfataricus exosome bound to short single-stranded RNAs and to ADP. The RNA binding cleft recognizes four nucleotides in a sequence-unspecific manner, mainly by electrostatic interactions with the phosphate groups. Interactions at the 2' hydroxyls of the sugars provide specificity for RNA over DNA. The structures show both the bound substrate and the cleaved product of the reaction, suggesting a catalytic mechanism for the 3'-5' phosphorolytic activity of the exosome.
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==About this Structure==
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Structural basis of 3' end RNA recognition and exoribonucleolytic cleavage by an exosome RNase PH core.,Lorentzen E, Conti E Mol Cell. 2005 Nov 11;20(3):473-81. PMID:16285928<ref>PMID:16285928</ref>
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2C37 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus] with <scene name='pdbligand=CL:'>CL</scene>, <scene name='pdbligand=NA:'>NA</scene>, <scene name='pdbligand=U5P:'>U5P</scene>, <scene name='pdbligand=U5P:'>U5P</scene> and <scene name='pdbligand=RP5:'>RP5</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. The following page contains interesting information on the relation of 2C37 with [[http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb86_1.html Exosomes]]. Known structural/functional Site: <scene name='pdbsite=AC1:U5p+Binding+Site+For+Chain+X'>AC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C37 OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Structural basis of 3' end RNA recognition and exoribonucleolytic cleavage by an exosome RNase PH core., Lorentzen E, Conti E, Mol Cell. 2005 Nov 11;20(3):473-81. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16285928 16285928]
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</div>
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<div class="pdbe-citations 2c37" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Exosomes]]
[[Category: Exosomes]]
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[[Category: Protein complex]]
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[[Category: Large Structures]]
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[[Category: Sulfolobus solfataricus]]
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[[Category: RCSB PDB Molecule of the Month]]
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[[Category: Conti, E.]]
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[[Category: Saccharolobus solfataricus]]
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[[Category: Lorentzen, E.]]
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[[Category: Conti E]]
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[[Category: CL]]
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[[Category: Lorentzen E]]
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[[Category: NA]]
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[[Category: RP5]]
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[[Category: U5P]]
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[[Category: archaeal]]
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[[Category: exoribonuclease]]
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[[Category: exosome]]
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[[Category: hydrolase]]
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[[Category: phosphorolytic]]
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[[Category: rna degradation]]
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[[Category: rnase ph]]
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[[Category: rrp41]]
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[[Category: rrp42]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Feb 3 10:30:51 2008''
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Current revision

RNASE PH CORE OF THE ARCHAEAL EXOSOME IN COMPLEX WITH U8 RNA

PDB ID 2c37

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