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| | <StructureSection load='4ba2' size='340' side='right'caption='[[4ba2]], [[Resolution|resolution]] 2.50Å' scene=''> | | <StructureSection load='4ba2' size='340' side='right'caption='[[4ba2]], [[Resolution|resolution]] 2.50Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4ba2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_35091 Atcc 35091]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BA2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BA2 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4ba2]] is a 4 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=4BA2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BA2 FirstGlance]. <br> |
| - | </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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.501Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2br2|2br2]], [[2c37|2c37]], [[2c38|2c38]], [[2c39|2c39]], [[2je6|2je6]], [[2jea|2jea]], [[2jeb|2jeb]], [[4ba1|4ba1]]</div></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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=4ba2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ba2 OCA], [https://pdbe.org/4ba2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ba2 RCSB], [https://www.ebi.ac.uk/pdbsum/4ba2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ba2 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=4ba2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ba2 OCA], [https://pdbe.org/4ba2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ba2 RCSB], [https://www.ebi.ac.uk/pdbsum/4ba2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ba2 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[https://www.uniprot.org/uniprot/ECX2_SULSO ECX2_SULSO]] Probably involved in the 3'->5' degradation of a variety of RNA species (Potential). [[https://www.uniprot.org/uniprot/ECR1_SULSO ECR1_SULSO]] Probably involved in degradation of a variety of RNA species; could act a RNA-binding component of the exosome (Potential). [[https://www.uniprot.org/uniprot/ECX1_SULSO ECX1_SULSO]] Probably involved in the 3'->5' degradation of a variety of RNA species (Potential).
| + | [https://www.uniprot.org/uniprot/RRP41_SACS2 RRP41_SACS2] Catalytic component of the exosome, which is a complex involved in RNA degradation. Has 3'->5' exoribonuclease activity. Can also synthesize heteromeric RNA-tails. Binds RNA.[HAMAP-Rule:MF_00591]<ref>PMID:15951817</ref> <ref>PMID:17380186</ref> <ref>PMID:20488184</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Atcc 35091]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Conti, E]] | + | [[Category: Saccharolobus solfataricus]] |
| - | [[Category: Lorentzen, E]] | + | [[Category: Conti E]] |
| - | [[Category: Archaea]] | + | [[Category: Lorentzen E]] |
| - | [[Category: Hydrolase-rna complex]]
| + | |
| - | [[Category: Phosphorolytic reaction mechanism]]
| + | |
| - | [[Category: Rna degradation]]
| + | |
| Structural highlights
Function
RRP41_SACS2 Catalytic component of the exosome, which is a complex involved in RNA degradation. Has 3'->5' exoribonuclease activity. Can also synthesize heteromeric RNA-tails. Binds RNA.[HAMAP-Rule:MF_00591][1] [2] [3]
Publication Abstract from PubMed
The RNA exosome is an important protein complex that functions in the 3' processing and degradation of RNA in archaeal and eukaryotic organisms. The archaeal exosome is functionally similar to bacterial polynucleotide phosphorylase (PNPase) and RNase PH enzymes as it uses inorganic phosphate (Pi) to processively cleave RNA substrates releasing nucleoside diphosphates. To shed light on the mechanism of catalysis, we have determined the crystal structures of mutant archaeal exosome in complex with either Pi or with both RNA and Pi at resolutions of 1.8 A and 2.5 A, respectively. These structures represent views of precatalytic states of the enzyme and allow the accurate determination of the substrate binding geometries. In the structure with both Pi and RNA bound, the Pi closely approaches the phosphate of the 3'-end nucleotide of the RNA and is in a perfect position to perform a nucleophilic attack. The presence of negative charge resulting from the close contacts between the phosphates appears to be neutralized by conserved positively charged residues in the active site of the archaeal exosome. The high degree of structural conservation between the archaeal exosome and the PNPase including the requirement for divalent metal ions for catalysis is discussed.
Crystal structure of a 9-subunit archaeal exosome in pre-catalytic States of the phosphorolytic reaction.,Lorentzen E, Conti E Archaea. 2012;2012:721869. doi: 10.1155/2012/721869. Epub 2012 Dec 20. PMID:23319881[4]
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
- ↑ 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
- ↑ 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, Conti E. Crystal structure of a 9-subunit archaeal exosome in pre-catalytic States of the phosphorolytic reaction. Archaea. 2012;2012:721869. doi: 10.1155/2012/721869. Epub 2012 Dec 20. PMID:23319881 doi:http://dx.doi.org/10.1155/2012/721869
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