4ejr

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==Crystal structure of major capsid protein S domain from rabbit hemorrhagic disease virus==
==Crystal structure of major capsid protein S domain from rabbit hemorrhagic disease virus==
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<StructureSection load='4ejr' size='340' side='right' caption='[[4ejr]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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<StructureSection load='4ejr' size='340' side='right'caption='[[4ejr]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4ejr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rabbit_hemorrhagic_disease_virus Rabbit hemorrhagic disease virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EJR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EJR FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4ejr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rabbit_hemorrhagic_disease_virus Rabbit hemorrhagic disease virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EJR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EJR FirstGlance]. <br>
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</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4egt|4egt]], [[4j1p|4j1p]]</td></tr>
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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&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">VP60 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11976 Rabbit hemorrhagic disease virus])</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=4ejr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ejr OCA], [https://pdbe.org/4ejr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ejr RCSB], [https://www.ebi.ac.uk/pdbsum/4ejr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ejr ProSAT]</span></td></tr>
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<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=4ejr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ejr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ejr RCSB], [http://www.ebi.ac.uk/pdbsum/4ejr PDBsum]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Q3HNQ2_RHDV Q3HNQ2_RHDV] 3C-like protease processes the polyprotein: 3CLpro-RdRp (p72) is first released by autocleavage, then all other proteins are cleaved.[ARBA:ARBA00003176] Capsid protein VP60 self assembles to form an icosahedral capsid with a T=3 symmetry, about 35 nm in diameter, and consisting of 180 capsid proteins. A smaller form of capsid with a diameter of 23 nm might be capsid proteins assembled as icosahedron with T=1 symmetry. The capsid encapsulate VP2 proteins and genomic or subgenomic RNA. Attaches virion to target cells by binding histo-blood group antigens, inducing endocytosis of the viral particle. Acidification of the endosome induces conformational change of capsid protein thereby injecting virus genomic RNA into host cytoplasm.[ARBA:ARBA00024666] NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity.[ARBA:ARBA00025124] Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation.[ARBA:ARBA00025359]
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Rabbit hemorrhagic disease, first described in China in 1984, causes hemorrhagic necrosis of the liver. Its etiological agent, rabbit hemorrhagic disease virus (RHDV), belongs to the Lagovirus genus in the family Caliciviridae. The detailed molecular structure of any lagovirus capsid has yet to be determined. Here, we report a cryo-electron microscopic (cryoEM) reconstruction of wild-type RHDV at 6.5 A resolution and the crystal structures of the shell (S) and protruding (P) domains of its major capsid protein, VP60, each at 2.0 A resolution. From these data we built a complete atomic model of the RHDV capsid. VP60 has a conserved S domain and a specific P2 sub-domain that differs from those found in other caliciviruses. As seen in the shell portion of the RHDV cryoEM map, which was resolved to approximately 5.5 A, the N-terminal arm domain of VP60 folds back onto its cognate S domain. Sequence alignments of VP60 from six groups of RHDV isolates revealed seven regions of high variation that could be mapped onto the surface of the P2 sub-domain and suggested three putative pockets might be responsible for binding to histo-blood group antigens. A flexible loop in one of these regions was shown to interact with rabbit tissue cells and contains an important epitope for anti-RHDV antibody production. Our study provides a reliable, pseudo-atomic model of a Lagovirus and suggests a new candidate for an efficient vaccine that can be used to protect rabbits from RHDV infection.
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Atomic model of rabbit hemorrhagic disease virus by cryo-electron microscopy and crystallography.,Wang X, Xu F, Liu J, Gao B, Liu Y, Zhai Y, Ma J, Zhang K, Baker TS, Schulten K, Zheng D, Pang H, Sun F PLoS Pathog. 2013 Jan;9(1):e1003132. doi: 10.1371/journal.ppat.1003132. Epub 2013, Jan 17. PMID:23341770<ref>PMID:23341770</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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==See Also==
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</div>
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*[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]]
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Large Structures]]
[[Category: Rabbit hemorrhagic disease virus]]
[[Category: Rabbit hemorrhagic disease virus]]
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[[Category: Ma, J]]
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[[Category: Ma J]]
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[[Category: Sun, F]]
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[[Category: Sun F]]
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[[Category: Wang, X]]
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[[Category: Wang X]]
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[[Category: Xu, F]]
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[[Category: Xu F]]
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[[Category: Zhang, K]]
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[[Category: Zhang K]]
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[[Category: Capsid protein]]
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[[Category: Viral protein]]
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Current revision

Crystal structure of major capsid protein S domain from rabbit hemorrhagic disease virus

PDB ID 4ejr

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