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7sf0

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Revision as of 16:50, 18 October 2023

Crystal structure of Vaccinia Virus decapping enzyme D9 in complex with trinucleotide substrate

Structural highlights

7sf0 is a 1 chain structure with sequence from Vaccinia virus Western Reserve. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.9500045Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

D9_VACCW

Publication Abstract from PubMed

Poxviruses encode decapping enzymes that remove the protective 5' cap from both host and viral mRNAs to commit transcripts for decay by the cellular exonuclease Xrn1. Decapping by these enzymes is critical for poxvirus pathogenicity by means of simultaneously suppressing host protein synthesis and limiting the accumulation of viral double-stranded RNA (dsRNA), a trigger for antiviral responses. Here we present a high-resolution structural view of the vaccinia virus decapping enzyme D9. This Nudix enzyme contains a domain organization different from other decapping enzymes in which a three-helix bundle is inserted into the catalytic Nudix domain. The 5' mRNA cap is positioned in a bipartite active site at the interface of the two domains. Specificity for the methylated guanosine cap is achieved by stacking between conserved aromatic residues in a manner similar to that observed in canonical cap-binding proteins VP39, eIF4E, and CBP20, and distinct from eukaryotic decapping enzyme Dcp2.

Structure of the poxvirus decapping enzyme D9 reveals its mechanism of cap recognition and catalysis.,Peters JK, Tibble RW, Warminski M, Jemielity J, Gross JD Structure. 2022 Mar 2. pii: S0969-2126(22)00048-X. doi:, 10.1016/j.str.2022.02.012. PMID:35290794^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Peters JK, Tibble RW, Warminski M, Jemielity J, Gross JD. Structure of the poxvirus decapping enzyme D9 reveals its mechanism of cap recognition and catalysis. Structure. 2022 Mar 2. pii: S0969-2126(22)00048-X. doi:, 10.1016/j.str.2022.02.012. PMID:35290794 doi:http://dx.doi.org/10.1016/j.str.2022.02.012

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/7sf0"

@@ Line 3: / Line 3: @@
 <StructureSection load='7sf0' size='340' side='right'caption='[[7sf0]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[7sf0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SF0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SF0 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[7sf0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vaccinia_virus_Western_Reserve Vaccinia virus Western Reserve]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SF0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SF0 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8NK:7-METHYLGUANOSINE+5-DIPHOSPHATE'>8NK</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.9500045&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[7sez|7sez]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8NK:7-METHYLGUANOSINE+5-DIPHOSPHATE'>8NK</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=7sf0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7sf0 OCA], [https://pdbe.org/7sf0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7sf0 RCSB], [https://www.ebi.ac.uk/pdbsum/7sf0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7sf0 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/L7QJE0_9POXV L7QJE0_9POXV]] Decapping enzyme required for the removal of the 5'-end m7GpppN cap tethered to viral and host mRNAs to allow their decay in cells. May therefore accelerate viral and cellular mRNA turnover to eliminate competing host mRNAs and allow stage-specific synthesis of viral proteins. Acceleration of the turnover of cellular transcripts may even promote the shutoff of host protein synthesis. Does not cleave unmethylated RNAs or RNAs shorter than 24 nucleotides.[ARBA:ARBA00025519]
+[https://www.uniprot.org/uniprot/D9_VACCW D9_VACCW]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 24: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Gross, J D]]
+[[Category: Vaccinia virus Western Reserve]]
-[[Category: Jemielity, J]]
+[[Category: Gross JD]]
-[[Category: Peters, J K]]
+[[Category: Jemielity J]]
-[[Category: Tibble, R W]]
+[[Category: Peters JK]]
-[[Category: Warminski, M]]
+[[Category: Tibble RW]]
-[[Category: Decapping]]
+[[Category: Warminski M]]
-[[Category: Mrna cap]]
-[[Category: Nudix]]
-[[Category: Viral protein]]

7sf0

From Proteopedia

Revision as of 16:50, 18 October 2023

Crystal structure of Vaccinia Virus decapping enzyme D9 in complex with trinucleotide substrate

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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