2jeb: Difference between revisions
New page: left|200px<br /> <applet load="2jeb" size="450" color="white" frame="true" align="right" spinBox="true" caption="2jeb, resolution 2.40Å" /> '''STRUCTURE OF A 9-SU... |
No edit summary |
||
| (22 intermediate revisions by the same user not shown) | |||
| Line 1: | Line 1: | ||
== | ==Structure of a 9-subunit archaeal exosome bound to Mn ions== | ||
<StructureSection load='2jeb' size='340' side='right'caption='[[2jeb]], [[Resolution|resolution]] 2.40Å' scene=''> | |||
== Structural highlights == | |||
[[ | <table><tr><td colspan='2'>[[2jeb]] 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=2JEB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JEB 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]] 2.4Å</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=MN:MANGANESE+(II)+ION'>MN</scene></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=2jeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jeb OCA], [https://pdbe.org/2jeb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jeb RCSB], [https://www.ebi.ac.uk/pdbsum/2jeb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jeb 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]] | ||
[ | Check<jmol> | ||
<jmolCheckbox> | |||
[ | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/je/2jeb_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=2jeb ConSurf]. | ||
[[ | <div style="clear:both"></div> | ||
[ | <div style="background-color:#fffaf0;"> | ||
== 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<ref>PMID:17380186</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 2jeb" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Exosome 3D structures|Exosome 3D structures]] | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Saccharolobus solfataricus]] | |||
[[Category: Conti E]] | |||
[[Category: Lorentzen E]] | |||
