1rmv

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{{Seed}}
 
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[[Image:1rmv.png|left|200px]]
 
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==RIBGRASS MOSAIC VIRUS, FIBER DIFFRACTION==
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The line below this paragraph, containing "STRUCTURE_1rmv", creates the "Structure Box" on the page.
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<StructureSection load='1rmv' size='340' side='right'caption='[[1rmv]], [[Resolution|resolution]] 2.90&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'>[[1rmv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Ribgrass_mosaic_virus Ribgrass mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RMV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RMV 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">Fiber diffraction, [[Resolution|Resolution]] 2.9&#8491;</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=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
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{{STRUCTURE_1rmv| PDB=1rmv | SCENE= }}
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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=1rmv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmv OCA], [https://pdbe.org/1rmv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rmv RCSB], [https://www.ebi.ac.uk/pdbsum/1rmv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rmv ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/CAPSD_RMVHR CAPSD_RMVHR] Capsid protein self-assembles to form rod-shaped virions about 18 nm in diameter with a central canal enclosing the viral genomic RNA.
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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/rm/1rmv_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=1rmv 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 molecular dynamics (MD) method has been adapted for refinement of the structures of helical macromolecular aggregates aginst X-ray fiber diffraction data. To test the effectiveness of the method, refinements of the tobacco mosaic virus structure were carried out against a set of simulated fiber diffraction intensities using the MD method as well as the conventional restrained least-squares (RLS) method. The MD refinement converged to a very low R factor and produced a structure with generally satisfactory sterochemistry, while the RLS refinemnt was trapped at a local energy minimum with a larger R factor. Results suggest that the effective experimental radius of convergence of the MD method is significantly greater than that of the RLS method. Even when the initial structure is too far from the true structure to allow direct refinement, the MD method is able to find local minima that resemble the true structure sufficiently to allow improved phasing and thus lead to interpretable difference maps for model rebuilding.
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===RIBGRASS MOSAIC VIRUS, FIBER DIFFRACTION===
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Molecular dynamics in refinement against fiber diffraction data.,Wang H, Stubbs G Acta Crystallogr A. 1993 May 1;49(3):504-13. PMID:8129880<ref>PMID:8129880</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 1rmv" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_8129880}}, 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 8129880 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_8129880}}
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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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1RMV is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Ribgrass_mosaic_virus Ribgrass mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RMV OCA].
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==Reference==
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<ref group="xtra">PMID:8129880</ref><references group="xtra"/>
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[[Category: Ribgrass mosaic virus]]
[[Category: Ribgrass mosaic virus]]
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[[Category: Stubbs, G.]]
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[[Category: Stubbs G]]
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[[Category: Wang, H.]]
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[[Category: Wang H]]
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[[Category: Helical virus]]
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[[Category: Ribgrass mosaic virus]]
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[[Category: Rmv cluster]]
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[[Category: Tobamovirus]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 21:31:19 2009''
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Current revision

RIBGRASS MOSAIC VIRUS, FIBER DIFFRACTION

PDB ID 1rmv

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