3bwq

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[[Image:3bwq.png|left|200px]]
 
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==Structure of free SV40 VP1 pentamer==
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The line below this paragraph, containing "STRUCTURE_3bwq", creates the "Structure Box" on the page.
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<StructureSection load='3bwq' size='340' side='right'caption='[[3bwq]], [[Resolution|resolution]] 2.30&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'>[[3bwq]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Macaca_mulatta_polyomavirus_1 Macaca mulatta polyomavirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BWQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BWQ FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3&#8491;</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=3bwq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bwq OCA], [https://pdbe.org/3bwq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bwq RCSB], [https://www.ebi.ac.uk/pdbsum/3bwq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bwq ProSAT]</span></td></tr>
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{{STRUCTURE_3bwq| PDB=3bwq | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/VP1_SV40 VP1_SV40] Forms an icosahedral capsid with a T=7 symmetry and a 40 nm diameter. The capsid is composed of 72 pentamers linked to each other by disulfide bonds and associated with VP2 or VP3 proteins. Binds to N-glycolylneuraminic analog of the ganglioside GM1 on the cell surface to provide virion attachment to target cell. Once attached, the virion is internalized by caveolin-mediated endocytosis and traffics to the endoplasmic reticulum. Inside the endoplasmic reticulum, the protein folding machinery isomerizes VP1 interpentamer disulfide bonds, thereby triggering initial uncoating. Next, the virion uses the endoplasmic reticulum-associated degradation machinery to probably translocate in the cytosol before reaching the nucleus. Nuclear entry of the viral DNA involves the selective exposure and importin recognition of VP2/Vp3 nuclear localization signal. The assembly takes place in the cell nucleus. Encapsulates the genomic DNA and participates in rearranging nucleosomes around the viral DNA. The viral progenies exit the cells by lytic release.
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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/bw/3bwq_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3bwq 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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Simian virus 40 (SV40) has been a paradigm for understanding attachment and entry of nonenveloped viruses, viral DNA replication, and virus assembly, as well as for endocytosis pathways associated with caveolin and cholesterol. We find by glycan array screening that SV40 recognizes its ganglioside receptor GM1 with a quite narrow specificity, but isothermal titration calorimetry shows that individual binding sites have a relatively low affinity, with a millimolar dissociation constant. The high-resolution crystal structure of recombinantly produced SV40 capsid protein, VP1, in complex with the carbohydrate portion of GM1, reveals that the receptor is bound in a shallow solvent-exposed groove at the outer surface of the capsid. Through a complex network of interactions, VP1 recognizes a conformation of GM1 that is the dominant one in solution. Analysis of contacts provides a structural basis for the observed specificity and suggests binding mechanisms for additional physiologically relevant GM1 variants. Comparison with murine Polyomavirus (Polyoma) receptor complexes reveals that SV40 uses a different mechanism of sialic acid binding, which has implications for receptor binding of human polyomaviruses. The SV40-GM1 complex reveals a parallel to cholera toxin, which uses a similar cell entry pathway and binds GM1 in the same conformation.
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===Structure of free SV40 VP1 pentamer===
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Structural basis of GM1 ganglioside recognition by simian virus 40.,Neu U, Woellner K, Gauglitz G, Stehle T Proc Natl Acad Sci U S A. 2008 Apr 1;105(13):5219-24. Epub 2008 Mar 19. PMID:18353982<ref>PMID:18353982</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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<div class="pdbe-citations 3bwq" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_18353982}}, adds the Publication Abstract to the page
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*[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 18353982 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18353982}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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[[3bwq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_virus_40 Simian virus 40]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BWQ OCA].
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[[Category: Macaca mulatta polyomavirus 1]]
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[[Category: Neu U]]
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==Reference==
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[[Category: Stehle T]]
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<ref group="xtra">PMID:018353982</ref><references group="xtra"/>
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[[Category: Simian virus 40]]
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[[Category: Neu, U.]]
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[[Category: Stehle, T.]]
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[[Category: Capsid protein]]
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[[Category: Ganglioside]]
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[[Category: Gm1]]
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[[Category: Late protein]]
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[[Category: Nucleus]]
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[[Category: Polyomavirus]]
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[[Category: Sv40]]
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[[Category: Viral protein]]
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[[Category: Viral receptor]]
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[[Category: Virion]]
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[[Category: Virus attachment]]
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Current revision

Structure of free SV40 VP1 pentamer

PDB ID 3bwq

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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