2oj6: Difference between revisions

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-{{Seed}}
-[[Image:2oj6.png|left|200px]]
-<!--
+==Crystal Structure of Reovirus T3D Attachment Protein Sigma1 head domain D345N mutant==
-The line below this paragraph, containing "STRUCTURE_2oj6", creates the "Structure Box" on the page.
+<StructureSection load='2oj6' size='340' side='right'caption='[[2oj6]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2oj6]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Reovirus_sp. Reovirus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OJ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OJ6 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.85&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-{{STRUCTURE_2oj6|  PDB=2oj6  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2oj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oj6 OCA], [https://pdbe.org/2oj6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oj6 RCSB], [https://www.ebi.ac.uk/pdbsum/2oj6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oj6 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/SIGM1_REOVD SIGM1_REOVD] Fiber-like molecule that attaches the virion to the host cell membrane by binding to the primary receptor F11R/JAM-A and to sialic acid containing proteins (coreceptor). The interaction of sigma-1 with F11R is required for NF-kB activation and apoptosis. Binding to both sialic acid and F11R is required to induce maximal levels of apoptosis.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/oj/2oj6_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=2oj6 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Reovirus attachment protein sigma1 mediates engagement of receptors on the surface of target cells and undergoes dramatic conformational rearrangements during viral disassembly in the endocytic pathway. The sigma1 protein is a filamentous, trimeric molecule with a globular beta-barrel head domain. An unusual cluster of aspartic acid residues sandwiched between hydrophobic tyrosines is located at the sigma1 subunit interface. A 1.75-A structure of the sigma1 head domain now reveals two water molecules at the subunit interface that are held strictly in position and interact with neighboring residues. Structural and biochemical analyses of mutants affecting the aspartic acid sandwich indicate that these residues and the corresponding chelated water molecules act as a plug to block the free flow of solvent and stabilize the trimer. This arrangement of residues at the sigma1 head trimer interface illustrates a new protein design motif that may confer conformational mobility during cell entry.
-===Crystal Structure of Reovirus T3D Attachment Protein Sigma1 head domain D345N mutant===
+The reovirus sigma1 aspartic acid sandwich: a trimerization motif poised for conformational change.,Schelling P, Guglielmi KM, Kirchner E, Paetzold B, Dermody TS, Stehle T J Biol Chem. 2007 Apr 13;282(15):11582-9. Epub 2007 Feb 15. PMID:17303562<ref>PMID:17303562</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2oj6" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_17303562}}, adds the Publication Abstract to the page
+*[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 17303562 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_17303562}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-OJ6 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Reovirus_sp. Reovirus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OJ6 OCA].
+[[Category: Reovirus sp]]
+[[Category: Dermody TS]]
-==Reference==
+[[Category: Kirchner E]]
-The reovirus sigma1 aspartic acid sandwich: a trimerization motif poised for conformational change., Schelling P, Guglielmi KM, Kirchner E, Paetzold B, Dermody TS, Stehle T, J Biol Chem. 2007 Apr 13;282(15):11582-9. Epub 2007 Feb 15. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17303562 17303562]
+[[Category: Stehle T]]
-[[Category: Reovirus sp.]]
-[[Category: Single protein]]
-[[Category: Dermody, T S.]]
-[[Category: Kirchner, E.]]
-[[Category: Stehle, T.]]
-[[Category: Aspartic acid cluster]]
-[[Category: Beta-barrel]]
-[[Category: Beta-spiral repeat]]
-[[Category: Greek key motif]]
-[[Category: Trimer]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 08:44:03 2008''