2r69

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{{Seed}}
 
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[[Image:2r69.png|left|200px]]
 
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==Crystal structure of Fab 1A1D-2 complexed with E-DIII of Dengue virus at 3.8 angstrom resolution==
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The line below this paragraph, containing "STRUCTURE_2r69", creates the "Structure Box" on the page.
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<StructureSection load='2r69' size='340' side='right'caption='[[2r69]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2r69]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Den26 Den26] and [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R69 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2R69 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">E protein ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31634 DEN26]), immunoglobulin ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2r69 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2r69 OCA], [https://pdbe.org/2r69 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2r69 RCSB], [https://www.ebi.ac.uk/pdbsum/2r69 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2r69 ProSAT]</span></td></tr>
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{{STRUCTURE_2r69| PDB=2r69 | SCENE= }}
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</table>
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== Function ==
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[[https://www.uniprot.org/uniprot/POLG_DEN2U POLG_DEN2U]] 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).
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/r6/2r69_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2r69 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The monoclonal antibody 1A1D-2 has been shown to strongly neutralize dengue virus serotypes 1, 2 and 3, primarily by inhibiting attachment to host cells. A crystal structure of its antigen binding fragment (Fab) complexed with domain III of the viral envelope glycoprotein, E, showed that the epitope would be partially occluded in the known structure of the mature dengue virus. Nevertheless, antibody could bind to the virus at 37 degrees C, suggesting that the virus is in dynamic motion making hidden epitopes briefly available. A cryo-electron microscope image reconstruction of the virus:Fab complex showed large changes in the organization of the E protein that exposed the epitopes on two of the three E molecules in each of the 60 icosahedral asymmetric units of the virus. The changes in the structure of the viral surface are presumably responsible for inhibiting attachment to cells.
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===Crystal structure of Fab 1A1D-2 complexed with E-DIII of Dengue virus at 3.8 angstrom resolution===
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Binding of a neutralizing antibody to dengue virus alters the arrangement of surface glycoproteins.,Lok SM, Kostyuchenko V, Nybakken GE, Holdaway HA, Battisti AJ, Sukupolvi-Petty S, Sedlak D, Fremont DH, Chipman PR, Roehrig JT, Diamond MS, Kuhn RJ, Rossmann MG Nat Struct Mol Biol. 2008 Mar;15(3):312-7. Epub 2008 Feb 10. PMID:18264114<ref>PMID:18264114</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_18264114}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2r69" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 18264114 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18264114}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Den26]]
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2R69 is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [http://en.wikipedia.org/wiki/Viruses Viruses]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R69 OCA].
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[[Category: Large Structures]]
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[[Category: Lk3 transgenic mice]]
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==Reference==
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[[Category: Battisti, A J]]
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Binding of a neutralizing antibody to dengue virus alters the arrangement of surface glycoproteins., Lok SM, Kostyuchenko V, Nybakken GE, Holdaway HA, Battisti AJ, Sukupolvi-Petty S, Sedlak D, Fremont DH, Chipman PR, Roehrig JT, Diamond MS, Kuhn RJ, Rossmann MG, Nat Struct Mol Biol. 2008 Mar;15(3):312-7. Epub 2008 Feb 10. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18264114 18264114]
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[[Category: Chipman, P R]]
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[[Category: Mus musculus]]
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[[Category: Diamond, M S]]
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[[Category: Viruses]]
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[[Category: Fremont, D H]]
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[[Category: Pdbx_ordinal=, <PDBx:audit_author.]]
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[[Category: Holdaway, H A]]
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[[Category: Kostyuchenko, V K]]
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[[Category: Kuhn, R J]]
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[[Category: Lok, S M]]
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[[Category: Nybakken, G E]]
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[[Category: Roehrig, J T]]
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[[Category: Rossmann, M G]]
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[[Category: Sedlak, D]]
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[[Category: Sukupolvi-petty, S]]
[[Category: Capsid protein]]
[[Category: Capsid protein]]
[[Category: Cleavage on pair of basic residue]]
[[Category: Cleavage on pair of basic residue]]
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[[Category: Membrane]]
[[Category: Membrane]]
[[Category: Transmembrane]]
[[Category: Transmembrane]]
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[[Category: Viral protein/immune system complex]]
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[[Category: Viral protein-immune system complex]]
[[Category: Virion]]
[[Category: Virion]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 3 20:09:24 2008''
 

Current revision

Crystal structure of Fab 1A1D-2 complexed with E-DIII of Dengue virus at 3.8 angstrom resolution

PDB ID 2r69

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