6l5t

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Current revision (10:45, 27 March 2024) (edit) (undo)
 
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<StructureSection load='6l5t' size='340' side='right'caption='[[6l5t]], [[Resolution|resolution]] 1.72&Aring;' scene=''>
<StructureSection load='6l5t' size='340' side='right'caption='[[6l5t]], [[Resolution|resolution]] 1.72&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6l5t]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Swine_acute_diarrhea_syndrome_coronavirus Swine acute diarrhea syndrome coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L5T OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6L5T FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6l5t]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Swine_acute_diarrhea_syndrome_coronavirus Swine acute diarrhea syndrome coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L5T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6L5T FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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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]] 1.72&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">orf1ab, ORF1ab ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2032731 Swine acute diarrhea syndrome coronavirus])</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=ZN:ZINC+ION'>ZN</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6l5t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l5t OCA], [http://pdbe.org/6l5t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6l5t RCSB], [http://www.ebi.ac.uk/pdbsum/6l5t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6l5t ProSAT]</span></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=6l5t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l5t OCA], [https://pdbe.org/6l5t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6l5t RCSB], [https://www.ebi.ac.uk/pdbsum/6l5t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6l5t ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/A0A385H8D7_9ALPC A0A385H8D7_9ALPC] Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter.[ARBA:ARBA00002928] Nsp9 is a ssRNA-binding protein.[ARBA:ARBA00003140] The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction.[ARBA:ARBA00003315] The papain-like proteinase 1 (PLP1) and papain-like proteinase 2 (PLP2) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. PLP2 also antagonizes innate immune induction of type I interferon by blocking the nuclear translocation of host IRF-3.[ARBA:ARBA00025562] The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.[ARBA:ARBA00003368]
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Swine acute diarrhea syndrome coronavirus (SADS-CoV) is a novel coronavirus that is involved in severe diarrhea disease in piglets, causing considerable agricultural and economic loss in China. The emergence of this new coronavirus increases the importance of understanding SADS-CoV as well as antivirals. Coronaviral proteases, including main proteases and papain-like proteases (PLP), are attractive antiviral targets because of their essential roles in polyprotein processing and thus viral maturation. Here, we describe the biochemical and structural identification of recombinant SADS papain-like protease 2 (PLP2) domain of nsp3. The SADS-CoV PLP2 was shown to cleave nsp1 proteins and also peptides mimicking the nsp2|nsp3 cleavage site and also had deubiquitinating and deISGynating activity by in vitro assays. The crystal structure adopts an architecture resembling that of PLPs from other coronaviruses. We characterize both conserved and unique structural features likely directing the interaction of PLP2 with the substrates, including the tentative mapping of active site and other essential residues. These results provide a foundation for understanding the molecular basis of coronaviral PLPs' catalytic mechanism and for the screening and design of therapeutics to combat infection by SADS coronavirus.
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Structural and biochemical characterization of SADS-CoV papain-like protease 2.,Wang L, Hu W, Fan C Protein Sci. 2020 Mar 26. doi: 10.1002/pro.3857. PMID:32216114<ref>PMID:32216114</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 6l5t" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Swine acute diarrhea syndrome coronavirus]]
[[Category: Swine acute diarrhea syndrome coronavirus]]
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[[Category: Fan, C P]]
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[[Category: Fan CP]]
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[[Category: Hydrolase]]
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[[Category: Protease]]
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Current revision

The crystal structure of SADS-CoV Papain Like protease

PDB ID 6l5t

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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