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4f5x

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==Location of the dsRNA-dependent polymerase, VP1, in rotavirus particles==
==Location of the dsRNA-dependent polymerase, VP1, in rotavirus particles==
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<StructureSection load='4f5x' size='340' side='right' caption='[[4f5x]], [[Resolution|resolution]] 5.00&Aring;' scene=''>
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<SX load='4f5x' size='340' side='right' viewer='molstar' caption='[[4f5x]], [[Resolution|resolution]] 5.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4f5x]] is a 16 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovine_rotavirus Bovine rotavirus], [http://en.wikipedia.org/wiki/Bovine_rotavirus_a Bovine rotavirus a] and [http://en.wikipedia.org/wiki/Simian_11_rotavirus_(serotype_3_/_strain_sa11-patton) Simian 11 rotavirus (serotype 3 / strain sa11-patton)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F5X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4F5X FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4f5x]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Bovine_rotavirus_A Bovine rotavirus A], [https://en.wikipedia.org/wiki/Bovine_rotavirus_strain_NCDV/G6 Bovine rotavirus strain NCDV/G6] and [https://en.wikipedia.org/wiki/Simian_11_rotavirus_(serotype_3_/_strain_SA11-Patton) Simian 11 rotavirus (serotype 3 / strain SA11-Patton)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F5X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4F5X FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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]] 5&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3kz4|3kz4]], [[2r7s|2r7s]]</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></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=4f5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f5x OCA], [https://pdbe.org/4f5x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4f5x RCSB], [https://www.ebi.ac.uk/pdbsum/4f5x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4f5x 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=4f5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f5x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4f5x RCSB], [http://www.ebi.ac.uk/pdbsum/4f5x 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/H9N1A6_9REOV H9N1A6_9REOV]
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Double-stranded RNA (dsRNA) viruses transcribe and replicate RNA within an assembled, inner capsid particle; only plus-sense mRNA emerges into the intracellular milieu. During infectious entry of a rotavirus particle, the outer layer of its three-layer structure dissociates, delivering the inner double-layered particle (DLP) into the cytosol. DLP structures determined by X-ray crystallography and electron cryomicroscopy (cryoEM) show that the RNA coils uniformly into the particle interior, avoiding a "fivefold hub" of more structured density projecting inward from the VP2 shell of the DLP along each of the twelve 5-fold axes. Analysis of the X-ray crystallographic electron density map suggested that principal contributors to the hub are the N-terminal arms of VP2, but reexamination of the cryoEM map has shown that many features come from a molecule of VP1, randomly occupying five equivalent and partly overlapping positions. We confirm here that the electron density in the X-ray map leads to the same conclusion, and we describe the functional implications of the orientation and position of the polymerase. The exit channel for the nascent transcript directs the nascent transcript toward an opening along the 5-fold axis. The template strand enters from within the particle, and the dsRNA product of the initial replication step exits in a direction tangential to the inner surface of the VP2 shell, allowing it to coil optimally within the DLP. The polymerases of reoviruses appear to have similar positions and functional orientations.
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Location of the dsRNA-Dependent Polymerase, VP1, in Rotavirus Particles.,Estrozi LF, Settembre EC, Goret G, McClain B, Zhang X, Chen JZ, Grigorieff N, Harrison SC J Mol Biol. 2012 Oct 23. pii: S0022-2836(12)00829-7. doi:, 10.1016/j.jmb.2012.10.011. PMID:23089332<ref>PMID:23089332</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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==See Also==
==See Also==
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*[[RNA polymerase|RNA polymerase]]
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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== References ==
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*[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]]
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<references/>
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__TOC__
__TOC__
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</StructureSection>
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</SX>
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[[Category: Bovine rotavirus]]
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[[Category: Bovine rotavirus A]]
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[[Category: Bovine rotavirus a]]
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[[Category: Bovine rotavirus strain NCDV/G6]]
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[[Category: RNA-directed RNA polymerase]]
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[[Category: Large Structures]]
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[[Category: Chen, J Z]]
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[[Category: Chen JZ]]
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[[Category: Estrozi, L F]]
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[[Category: Estrozi LF]]
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[[Category: Goret, G]]
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[[Category: Goret G]]
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[[Category: Grigorieff, N]]
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[[Category: Grigorieff N]]
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[[Category: Harrison, S C]]
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[[Category: Harrison SC]]
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[[Category: McClain, B]]
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[[Category: McClain B]]
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[[Category: Settembre, E C]]
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[[Category: Settembre EC]]
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[[Category: Zhang, X]]
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[[Category: Zhang X]]
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[[Category: Beta-jellyroll]]
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[[Category: Polymerase]]
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[[Category: Transcriptase]]
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[[Category: Virus]]
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Current revision

Location of the dsRNA-dependent polymerase, VP1, in rotavirus particles

4f5x, resolution 5.00Å

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OCA

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