3p06: Difference between revisions

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[[Image:3p06.png|left|200px]]


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==Crystal structure of Tellina virus 1 VP4 protease in the form of an intra-molecular(cis)acyl-enzyme complex.==
The line below this paragraph, containing "STRUCTURE_3p06", creates the "Structure Box" on the page.
<StructureSection load='3p06' size='340' side='right'caption='[[3p06]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3p06]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Tellina_virus_1 Tellina virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P06 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3P06 FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#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=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=URE:UREA'>URE</scene></td></tr>
{{STRUCTURE_3p06|  PDB=3p06  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3p06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3p06 OCA], [https://pdbe.org/3p06 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3p06 RCSB], [https://www.ebi.ac.uk/pdbsum/3p06 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3p06 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q2PBR5_9VIRU Q2PBR5_9VIRU]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Viruses of the Birnaviridae family are characterized by their bisegmented double-stranded RNA genome that resides within a single-shelled non-enveloped icosahedral particle. They infect birds, aquatic organisms and insects. Tellina virus 1 (TV-1) is an Aquabirnavirus isolated from the mollusk Tellina tenuis. It encodes a polyprotein (NH2-pVP2-X-VP4-VP3-COOH) that is cleaved by the self-encoded protease VP4 to yield capsid precursor protein pVP2, peptide X and ribonucleoprotein VP3. Here we report the crystal structure of an intramolecular (cis) acyl-enzyme complex of TV-1 VP4 at 2.1 A resolution. The structure reveals how the enzyme can recognize its own carboxy-terminus during the VP4/VP3 cleavage event. The methyl sidechains of Ala830(P1) and Ala828(P3) at the VP4/VP3 junction point into complementary shallow and hydrophobic S1 and S3 binding pockets adjacent to the VP4 catalytic residues: nucleophile Ser738 and general base Lys777. The electron density clearly shows that the carbonyl carbon of Ala830 is covalently attached via an ester bond to the Ogamma of Ser738. A highly ordered water molecule in the active site is coordinated in the proper position to act as the deacylating water. A comparative analysis of this intramolecular (cis) acyl-enzyme structure with the previously solved intermolecular (trans) acyl-enzyme structure of infectious pancreatic necrosis virus (IPNV) VP4 explains the narrower specificity observed in the cleavage sites of TV-1 VP4.


===Crystal structure of Tellina virus 1 VP4 protease in the form of an intra-molecular(cis)acyl-enzyme complex.===
Crystal structure of a viral protease intramolecular acyl-enzyme complex. Insights into cis-cleavage at the VP4/VP3 junction of Tellina birnavirus.,Chung IY, Paetzel M J Biol Chem. 2011 Feb 2. PMID:21288899<ref>PMID:21288899</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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The line below this paragraph, {{ABSTRACT_PUBMED_21288899}}, adds the Publication Abstract to the page
<div class="pdbe-citations 3p06" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 21288899 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_21288899}}
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</StructureSection>
==About this Structure==
[[Category: Large Structures]]
[[3p06]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Tellina_virus_1 Tellina virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P06 OCA].
 
==Reference==
<ref group="xtra">PMID:21288899</ref><ref group="xtra">PMID:21206051</ref><references group="xtra"/>
[[Category: Infectious pancreatic necrosis birnavirus Vp4 peptidase]]
[[Category: Tellina virus 1]]
[[Category: Tellina virus 1]]
[[Category: Chung, I Y.W.]]
[[Category: Chung IYW]]
[[Category: Paetzel, M.]]
[[Category: Paetzel M]]

Latest revision as of 22:43, 26 March 2025

Crystal structure of Tellina virus 1 VP4 protease in the form of an intra-molecular(cis)acyl-enzyme complex.

3p06, resolution 2.10Å

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