4ffz: Difference between revisions

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== Structural highlights ==

<table><tr><td colspan='2'>[[4ffz]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Den1w Den1w~~] and [~~http~~://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FFZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4FFZ FirstGlance]. <br>

<table><tr><td colspan='2'>[[4ffz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_1_Nauru/West_Pac/1974 Dengue virus 1 Nauru/West Pac/1974] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FFZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FFZ FirstGlance]. <br>

</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3irc|3irc]]</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=4ffz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ffz OCA], [https://pdbe.org/4ffz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ffz RCSB], [https://www.ebi.ac.uk/pdbsum/4ffz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ffz 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=4ffz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ffz OCA], [~~http~~://pdbe.org/4ffz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ffz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ffz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ffz ProSAT]</span></td></tr>

</table>

== Function ==

[~~[http~~://www.uniprot.org/uniprot/~~POLG_DEN1W POLG_DEN1W~~]] Capsid protein C self-assembles to form an icosahedral capsid about 30 nm in diameter. The capsid encapsulates the genomic RNA (By similarity). prM acts as a chaperone for envelope protein E during intracellular virion assembly by masking and inactivating envelope protein E fusion peptide. prM is matured in the last step of virion assembly, presumably to avoid catastrophic activation of the viral fusion peptide induced by the acidic pH of the trans-Golgi network. After cleavage by host furin, the pr peptide is released in the extracellular medium and small envelope protein M and envelope protein E homodimers are dissociated (By similarity). Envelope protein E binding to host cell surface receptor is followed by virus internalization through clathrin-mediated endocytosis. Envelope protein E is subsequently involved in membrane fusion between virion and host late endosomes. Synthesized as a homodimer with prM which acts as a chaperone for envelope protein E. After cleavage of prM, envelope protein E dissociate from small envelope protein M and homodimerizes (By similarity). Non-structural protein 1 is involved in virus replication and regulation of the innate immune response. Soluble and membrane-associated NS1 may activate human complement and induce host vascular leakage. This effect might explain the clinical manifestations of dengue hemorrhagic fever and dengue shock syndrome (By similarity). Non-structural protein 2A may be involved viral RNA replication and capsid assembly (Potential). Non-structural protein 2B is a required cofactor for the serine protease function of NS3 (By similarity). Serine protease NS3 displays three enzymatic activities: serine protease, NTPase and RNA helicase. NS3 serine protease, in association with NS2B, performs its autocleavage and cleaves the polyprotein at dibasic sites in the cytoplasm: C-prM, NS2A-NS2B, NS2B-NS3, NS3-NS4A, NS4A-2K and NS4B-NS5. NS3 RNA helicase binds RNA and unwinds dsRNA in the 3' to 5' direction (By similarity). Non-structural protein 4A induces host endoplasmic reticulum membrane rearrangements leading to the formation of virus-induced membranous vesicles hosting the dsRNA and polymerase, functioning as a replication complex. NS4A might also regulate the ATPase activity of the NS3 helicase (By similarity). Peptide 2k functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter (By similarity). Non-structural protein 4B inhibits interferon (IFN)-induced host STAT1 phosphorylation and nuclear translocation, thereby preventing the establishment of cellular antiviral state by blocking the IFN-alpha/beta pathway (By similarity). RNA-directed RNA polymerase NS5 replicates the viral (+) and (-) genome, and performs the capping of genomes in the cytoplasm. NS5 methylates viral RNA cap at guanine N-7 and ribose 2'-O positions. Besides its role in genome replication, also prevents the establishment of cellular antiviral state by blocking the interferon-alpha/beta (IFN-alpha/beta) signaling pathway. Inhibits host TYK2 and STAT2 phosphorylation, thereby preventing activation of JAK-STAT signaling pathway (By similarity).

[https://www.uniprot.org/uniprot/Q88640_9FLAV Q88640_9FLAV]

== Publication Abstract from PubMed ==

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__TOC__

</StructureSection>

[[Category: ~~Den1w~~]]

[[Category: Dengue virus 1 Nauru/West Pac/1974]]

[[Category: Large Structures]]

[[Category: Mus musculus]]

[[Category: Austin~~, S K]]~~

[[Category: Austin SK]]

~~[[Category: Structural genomic~~]]

[[Category: Fremont DH]]

[[Category: Fremont~~, D H~~]]

[[Category: Nelson CA]]

[[Category: Nelson~~, C A]]~~

~~[[Category: Antibody fab fragment]]~~

~~[[Category: Csgid]]~~

~~[[Category: Dengue virus]]~~

~~[[Category: Flavivirus]]~~

~~[[Category: Immune system]]~~

~~[[Category: Immune system-viral protein complex]]~~

~~[[Category: Immunoglobulin-like domain]]~~

~~[[Category: National institute of allergy and infectious disease]]~~

~~[[Category: Niaid]]~~

~~[[Category: Viral envelope protein]]~~

~~[[Category: Virion~~]]

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@@ Line 3: / Line 3: @@
 <StructureSection load='4ffz' size='340' side='right'caption='[[4ffz]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4ffz]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Den1w Den1w] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FFZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FFZ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4ffz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_1_Nauru/West_Pac/1974 Dengue virus 1 Nauru/West Pac/1974] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FFZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FFZ FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3irc|3irc]]</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=4ffz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ffz OCA], [https://pdbe.org/4ffz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ffz RCSB], [https://www.ebi.ac.uk/pdbsum/4ffz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ffz 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=4ffz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ffz OCA], [http://pdbe.org/4ffz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ffz RCSB], [http://www.ebi.ac.uk/pdbsum/4ffz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ffz ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/POLG_DEN1W POLG_DEN1W]] Capsid protein C self-assembles to form an icosahedral capsid about 30 nm in diameter. The capsid encapsulates the genomic RNA (By similarity).  prM acts as a chaperone for envelope protein E during intracellular virion assembly by masking and inactivating envelope protein E fusion peptide. prM is matured in the last step of virion assembly, presumably to avoid catastrophic activation of the viral fusion peptide induced by the acidic pH of the trans-Golgi network. After cleavage by host furin, the pr peptide is released in the extracellular medium and small envelope protein M and envelope protein E homodimers are dissociated (By similarity).  Envelope protein E binding to host cell surface receptor is followed by virus internalization through clathrin-mediated endocytosis. Envelope protein E is subsequently involved in membrane fusion between virion and host late endosomes. Synthesized as a homodimer with prM which acts as a chaperone for envelope protein E. After cleavage of prM, envelope protein E dissociate from small envelope protein M and homodimerizes (By similarity).  Non-structural protein 1 is involved in virus replication and regulation of the innate immune response. Soluble and membrane-associated NS1 may activate human complement and induce host vascular leakage. This effect might explain the clinical manifestations of dengue hemorrhagic fever and dengue shock syndrome (By similarity).  Non-structural protein 2A may be involved viral RNA replication and capsid assembly (Potential).  Non-structural protein 2B is a required cofactor for the serine protease function of NS3 (By similarity).  Serine protease NS3 displays three enzymatic activities: serine protease, NTPase and RNA helicase. NS3 serine protease, in association with NS2B, performs its autocleavage and cleaves the polyprotein at dibasic sites in the cytoplasm: C-prM, NS2A-NS2B, NS2B-NS3, NS3-NS4A, NS4A-2K and NS4B-NS5. NS3 RNA helicase binds RNA and unwinds dsRNA in the 3' to 5' direction (By similarity).  Non-structural protein 4A induces host endoplasmic reticulum membrane rearrangements leading to the formation of virus-induced membranous vesicles hosting the dsRNA and polymerase, functioning as a replication complex. NS4A might also regulate the ATPase activity of the NS3 helicase (By similarity).  Peptide 2k functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter (By similarity).  Non-structural protein 4B inhibits interferon (IFN)-induced host STAT1 phosphorylation and nuclear translocation, thereby preventing the establishment of cellular antiviral state by blocking the IFN-alpha/beta pathway (By similarity).  RNA-directed RNA polymerase NS5 replicates the viral (+) and (-) genome, and performs the capping of genomes in the cytoplasm. NS5 methylates viral RNA cap at guanine N-7 and ribose 2'-O positions. Besides its role in genome replication, also prevents the establishment of cellular antiviral state by blocking the interferon-alpha/beta (IFN-alpha/beta) signaling pathway. Inhibits host TYK2 and STAT2 phosphorylation, thereby preventing activation of JAK-STAT signaling pathway (By similarity).
+[https://www.uniprot.org/uniprot/Q88640_9FLAV Q88640_9FLAV]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 21: @@
 __TOC__
 </StructureSection>
-[[Category: Den1w]]
+[[Category: Dengue virus 1 Nauru/West Pac/1974]]
 [[Category: Large Structures]]
 [[Category: Mus musculus]]
-[[Category: Austin, S K]]
+[[Category: Austin SK]]
-[[Category: Structural genomic]]
+[[Category: Fremont DH]]
-[[Category: Fremont, D H]]
+[[Category: Nelson CA]]
-[[Category: Nelson, C A]]
-[[Category: Antibody fab fragment]]
-[[Category: Csgid]]
-[[Category: Dengue virus]]
-[[Category: Flavivirus]]
-[[Category: Immune system]]
-[[Category: Immune system-viral protein complex]]
-[[Category: Immunoglobulin-like domain]]
-[[Category: National institute of allergy and infectious disease]]
-[[Category: Niaid]]
-[[Category: Viral envelope protein]]
-[[Category: Virion]]