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2je6

From Proteopedia

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Structure of a 9-subunit archaeal exosome

Structural highlights

2je6 is a 3 chain structure with sequence from Saccharolobus solfataricus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.6Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

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]^[1] ^[2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Exosomes are complexes containing 3' --> 5' exoribonucleases that have important roles in processing, decay and quality control of various RNA molecules. Archaeal exosomes consist of a hexameric core of three active RNase PH subunits (ribosomal RNA processing factor (Rrp)41) and three inactive RNase PH subunits (Rrp42). A trimeric ring of subunits with putative RNA-binding domains (Rrp4/cep1 synthetic lethality (Csl)4) is positioned on top of the hexamer on the opposite side to the RNA degrading sites. Here, we present the 1.6 A resolution crystal structure of the nine-subunit exosome of Sulfolobus solfataricus and the 2.3 A structure of this complex bound to an RNA substrate designed to be partly trimmed rather than completely degraded. The RNA binds both at the active site on one side of the molecule and on the opposite side in the narrowest constriction of the central channel. Multiple substrate-binding sites and the entrapment of the substrate in the central channel provide a rationale for the processive degradation of extended RNAs and the stalling of structured RNAs.

RNA channelling by the archaeal exosome.,Lorentzen E, Dziembowski A, Lindner D, Seraphin B, Conti E EMBO Rep. 2007 May;8(5):470-6. Epub 2007 Mar 23. PMID:17380186^[3]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Lorentzen E, Walter P, Fribourg S, Evguenieva-Hackenberg E, Klug G, Conti E. The archaeal exosome core is a hexameric ring structure with three catalytic subunits. Nat Struct Mol Biol. 2005 Jul;12(7):575-81. Epub 2005 Jun 12. PMID:15951817 doi:10.1038/nsmb952
↑ Roppelt V, Klug G, Evguenieva-Hackenberg E. The evolutionarily conserved subunits Rrp4 and Csl4 confer different substrate specificities to the archaeal exosome. FEBS Lett. 2010 Jul 2;584(13):2931-6. PMID:20488184 doi:10.1016/j.febslet.2010.05.014
↑ Lorentzen E, Dziembowski A, Lindner D, Seraphin B, Conti E. RNA channelling by the archaeal exosome. EMBO Rep. 2007 May;8(5):470-6. Epub 2007 Mar 23. PMID:17380186

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2je6"

Categories: Large Structures | Saccharolobus solfataricus | Conti E | Lorentzen E

@@ Line 1: / Line 1: @@
 ==Structure of a 9-subunit archaeal exosome==
-<StructureSection load='2je6' size='340' side='right' caption='[[2je6]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
+<StructureSection load='2je6' size='340' side='right'caption='[[2je6]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2je6]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/'saccharolobus_solfataricus' 'saccharolobus solfataricus']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JE6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JE6 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2je6]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus Saccharolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JE6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JE6 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.6&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2br2|2br2]], [[2c37|2c37]], [[2c38|2c38]], [[2c39|2c39]], [[2jea|2jea]], [[2jeb|2jeb]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2je6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2je6 OCA], [http://pdbe.org/2je6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2je6 RCSB], [http://www.ebi.ac.uk/pdbsum/2je6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2je6 ProSAT]</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=2je6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2je6 OCA], [https://pdbe.org/2je6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2je6 RCSB], [https://www.ebi.ac.uk/pdbsum/2je6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2je6 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[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>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 30: / Line 32: @@
 ==See Also==
 *[[Exosome|Exosome]]
+*[[Exosome 3D structures|Exosome 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Saccharolobus solfataricus]]
-[[Category: Conti, E]]
+[[Category: Conti E]]
-[[Category: Lorentzen, E]]
+[[Category: Lorentzen E]]
-[[Category: Archaeal]]
-[[Category: Exonuclease]]
-[[Category: Exoribonuclease]]
-[[Category: Exosome]]
-[[Category: Hydrolase]]
-[[Category: Nuclease]]
-[[Category: Phosphorolytic]]
-[[Category: Rna]]
-[[Category: Rna degradation]]
-[[Category: Rna-binding]]
-[[Category: Rnase ph]]
-[[Category: Rrp4]]
-[[Category: Rrp41]]
-[[Category: Rrp42]]

2je6

From Proteopedia

Current revision

Structure of a 9-subunit archaeal exosome

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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