2gef: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[2gef]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Blotched_snakehead_virus Blotched snakehead virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GEF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GEF FirstGlance]. <br> | <table><tr><td colspan='2'>[[2gef]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Blotched_snakehead_virus Blotched snakehead virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GEF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GEF FirstGlance]. <br> | ||
</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | ||
<tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">birnaviridae ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=311176 Blotched snakehead virus])</td></tr> | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">birnaviridae ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=311176 Blotched snakehead virus])</td></tr> | ||
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2gef FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gef OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gef RCSB], [http://www.ebi.ac.uk/pdbsum/2gef PDBsum]</span></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=2gef FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gef OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gef RCSB], [http://www.ebi.ac.uk/pdbsum/2gef PDBsum]</span></td></tr> | ||
<table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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</StructureSection> | </StructureSection> | ||
[[Category: Blotched snakehead virus]] | [[Category: Blotched snakehead virus]] | ||
[[Category: Delmas, B | [[Category: Delmas, B]] | ||
[[Category: Feldman, A R | [[Category: Feldman, A R]] | ||
[[Category: Lee, J | [[Category: Lee, J]] | ||
[[Category: Paetzel, M | [[Category: Paetzel, M]] | ||
[[Category: Birnavirus]] | [[Category: Birnavirus]] | ||
[[Category: Hydrolase]] | [[Category: Hydrolase]] | ||
[[Category: Lysine general base]] | [[Category: Lysine general base]] | ||
[[Category: Serine/lysine dyad mechamism]] | [[Category: Serine/lysine dyad mechamism]] | ||
Revision as of 09:34, 22 December 2014
Crystal structure of a Novel viral protease with a serine/lysine catalytic dyad mechanismCrystal structure of a Novel viral protease with a serine/lysine catalytic dyad mechanism
Structural highlights
Publication Abstract from PubMedThe blotched snakehead virus (BSNV), an aquatic birnavirus, encodes a polyprotein (NH2-pVP2-X-VP4-VP3-COOH) that is processed through the proteolytic activity of its own protease (VP4) to liberate itself and the viral proteins pVP2, X and VP3. The protein pVP2 is further processed by VP4 to give rise to the capsid protein VP2 and four structural peptides. We report here the crystal structure of a VP4 protease from BSNV, which displays a catalytic serine/lysine dyad in its active site. This is the first crystal structure of a birnavirus protease and the first crystal structure of a viral protease that utilizes a lysine general base in its catalytic mechanism. The topology of the VP4 substrate binding site is consistent with the enzymes substrate specificity and a nucleophilic attack from the si-face of the substrates scissile bond. Despite low levels of sequence identity, VP4 shows similarities in its active site to other characterized Ser/Lys proteases such as signal peptidase, LexA protease and Lon protease. Together, the structure of VP4 provides insights into the mechanism of a recently characterized clan of serine proteases that utilize a lysine general base and reveals the structure of potential targets for antiviral therapy, especially for other related and economically important viruses, such as infectious bursal disease virus in poultry and infectious pancreatic necrosis virus in aquaculture. Crystal structure of a novel viral protease with a serine/lysine catalytic dyad mechanism.,Feldman AR, Lee J, Delmas B, Paetzel M J Mol Biol. 2006 May 19;358(5):1378-89. Epub 2006 Mar 6. PMID:16584747[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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