4ypi: Difference between revisions

Revision as of 08:24, 3 May 2023

Structure of Ebola virus nucleoprotein N-terminal fragment bound to a peptide derived from Ebola VP35

Structural highlights

4ypi is a 8 chain structure with sequence from Ebola virus - Mayinga, Zaire, 1976. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

NCAP_EBOZM Encapsidates the genome, protecting it from nucleases. The encapsidated genomic RNA is termed the nucleocapsid and serves as template for transcription and replication. During replication, encapsidation by NP is coupled to RNA synthesis and all replicative products are resistant to nucleases.

Publication Abstract from PubMed

During viral RNA synthesis, Ebola virus (EBOV) nucleoprotein (NP) alternates between an RNA-template-bound form and a template-free form to provide the viral polymerase access to the RNA template. In addition, newly synthesized NP must be prevented from indiscriminately binding to noncognate RNAs. Here, we investigate the molecular bases for these critical processes. We identify an intrinsically disordered peptide derived from EBOV VP35 (NPBP, residues 20-48) that binds NP with high affinity and specificity, inhibits NP oligomerization, and releases RNA from NP-RNA complexes in vitro. The structure of the NPBP/DeltaNPNTD complex, solved to 3.7 A resolution, reveals how NPBP peptide occludes a large surface area that is important for NP-NP and NP-RNA interactions and for viral RNA synthesis. Together, our results identify a highly conserved viral interface that is important for EBOV replication and can be targeted for therapeutic development.

An Intrinsically Disordered Peptide from Ebola Virus VP35 Controls Viral RNA Synthesis by Modulating Nucleoprotein-RNA Interactions.,Leung DW, Borek D, Luthra P, Binning JM, Anantpadma M, Liu G, Harvey IB, Su Z, Endlich-Frazier A, Pan J, Shabman RS, Chiu W, Davey RA, Otwinowski Z, Basler CF, Amarasinghe GK Cell Rep. 2015 Apr 21;11(3):376-89. doi: 10.1016/j.celrep.2015.03.034. Epub 2015 , Apr 9. PMID:25865894^[1]

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

References

↑ Leung DW, Borek D, Luthra P, Binning JM, Anantpadma M, Liu G, Harvey IB, Su Z, Endlich-Frazier A, Pan J, Shabman RS, Chiu W, Davey RA, Otwinowski Z, Basler CF, Amarasinghe GK. An Intrinsically Disordered Peptide from Ebola Virus VP35 Controls Viral RNA Synthesis by Modulating Nucleoprotein-RNA Interactions. Cell Rep. 2015 Apr 21;11(3):376-89. doi: 10.1016/j.celrep.2015.03.034. Epub 2015 , Apr 9. PMID:25865894 doi:https://dx.doi.org/10.1016/j.celrep.2015.03.034

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Leung DW, Borek D, Luthra P, Binning JM, Anantpadma M, Liu G, Harvey IB, Su Z, Endlich-Frazier A, Pan J, Shabman RS, Chiu W, Davey RA, Otwinowski Z, Basler CF, Amarasinghe GK. An Intrinsically Disordered Peptide from Ebola Virus VP35 Controls Viral RNA Synthesis by Modulating Nucleoprotein-RNA Interactions. Cell Rep. 2015 Apr 21;11(3):376-89. doi: 10.1016/j.celrep.2015.03.034. Epub 2015 , Apr 9. PMID:25865894 doi:https://dx.doi.org/10.1016/j.celrep.2015.03.034

[1]

@@ Line 3: / Line 3: @@
 <StructureSection load='4ypi' size='340' side='right'caption='[[4ypi]], [[Resolution|resolution]] 3.71&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4ypi]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Ebov-may Ebov-may]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YPI FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4ypi]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Ebola_virus_-_Mayinga,_Zaire,_1976 Ebola virus - Mayinga, Zaire, 1976]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YPI FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">NP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=128952 EBOV-May])</td></tr>
+</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=4ypi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypi OCA], [https://pdbe.org/4ypi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ypi RCSB], [https://www.ebi.ac.uk/pdbsum/4ypi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypi ProSAT]</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=4ypi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypi OCA], [http://pdbe.org/4ypi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ypi RCSB], [http://www.ebi.ac.uk/pdbsum/4ypi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypi ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/NCAP_EBOZM NCAP_EBOZM]] Encapsidates the genome, protecting it from nucleases. The encapsidated genomic RNA is termed the nucleocapsid and serves as template for transcription and replication. During replication, encapsidation by NP is coupled to RNA synthesis and all replicative products are resistant to nucleases. [[http://www.uniprot.org/uniprot/VP35_EBOZM VP35_EBOZM]] Acsts as a polymerase cofactor in the RNA polymerase transcription and replication complex. Prevents establishment of cellular antiviral state by blocking virus-induced phosphorylation and activation of interferon regulatory factor 3 (IRF3), a transcription factor critical for the induction of interferons alpha and beta. The mechanism by which this blockage occurs remains incompletely defined, a hypothesis suggests that VP35 dsRNA-binding activity prevents activation of IRF3 by sequestering dsRNA. Also inhibits the antiviral effect mediated by the interferon-induced, double-stranded RNA-activated protein kinase EIF2AK2/PKR.<ref>PMID:9971816</ref> <ref>PMID:11027311</ref> <ref>PMID:12829834</ref> <ref>PMID:16495261</ref> <ref>PMID:17065211</ref>
+[https://www.uniprot.org/uniprot/NCAP_EBOZM NCAP_EBOZM] Encapsidates the genome, protecting it from nucleases. The encapsidated genomic RNA is termed the nucleocapsid and serves as template for transcription and replication. During replication, encapsidation by NP is coupled to RNA synthesis and all replicative products are resistant to nucleases.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 25: / Line 24: @@
 __TOC__
 </StructureSection>
-[[Category: Ebov-may]]
+[[Category: Ebola virus - Mayinga, Zaire, 1976]]
 [[Category: Large Structures]]
-[[Category: Amarasinghe, G K]]
+[[Category: Amarasinghe GK]]
-[[Category: Binning, J M]]
+[[Category: Binning JM]]
-[[Category: Borek, D M]]
+[[Category: Borek DM]]
-[[Category: Structural genomic]]
+[[Category: Leung DW]]
-[[Category: Leung, D W]]
+[[Category: Otwinowski Z]]
-[[Category: Otwinowski, Z]]
-[[Category: Csgid]]
-[[Category: Ebola virus]]
-[[Category: Nucleoprotein]]
-[[Category: Protein complex]]
-[[Category: Rna binding protein]]
-[[Category: Vp35]]

4ypi: Difference between revisions

Revision as of 08:24, 3 May 2023

Structure of Ebola virus nucleoprotein N-terminal fragment bound to a peptide derived from Ebola VP35

Structural highlights

Function

Publication Abstract from PubMed

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References

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