2bf1: Difference between revisions

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-{{Seed}}
-[[Image:2bf1.png|left|200px]]
-<!--
+==Structure of an unliganded and fully-glycosylated SIV gp120 envelope glycoprotein==
-The line below this paragraph, containing "STRUCTURE_2bf1", creates the "Structure Box" on the page.
+<StructureSection load='2bf1' size='340' side='right'caption='[[2bf1]], [[Resolution|resolution]] 4.00&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'>[[2bf1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BF1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BF1 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]] 4&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-{{STRUCTURE_2bf1|  PDB=2bf1  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2bf1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bf1 OCA], [https://pdbe.org/2bf1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bf1 RCSB], [https://www.ebi.ac.uk/pdbsum/2bf1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bf1 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q07374_SIV Q07374_SIV]
+== 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/bf/2bf1_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2bf1 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Envelope glycoproteins of human and simian immunodeficiency virus (HIV and SIV) undergo a series of conformational changes when they interact with receptor (CD4) and co-receptor on the surface of a potential host cell, leading ultimately to fusion of viral and cellular membranes. Structures of fragments of gp120 and gp41 from the envelope protein are known, in conformations corresponding to their post-attachment and postfusion states, respectively. We report the crystal structure, at 4 A resolution, of a fully glycosylated SIV gp120 core, in a conformation representing its prefusion state, before interaction with CD4. Parts of the protein have a markedly different organization than they do in the CD4-bound state. Comparison of the unliganded and CD4-bound structures leads to a model for events that accompany receptor engagement of an envelope glycoprotein trimer. The two conformations of gp120 also present distinct antigenic surfaces. We identify the binding site for a compound that inhibits viral entry.
-===STRUCTURE OF AN UNLIGANDED AND FULLY-GLYCOSYLATED SIV GP120 ENVELOPE GLYCOPROTEIN===
+Structure of an unliganded simian immunodeficiency virus gp120 core.,Chen B, Vogan EM, Gong H, Skehel JJ, Wiley DC, Harrison SC Nature. 2005 Feb 24;433(7028):834-41. PMID:15729334<ref>PMID:15729334</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2bf1" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15729334}}, adds the Publication Abstract to the page
+*[[Gp120 3D structures|Gp120 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15729334 is the PubMed ID number.
+*[[Immunodeficiency virus protease 3D structures|Immunodeficiency virus protease 3D structures]]
--->
+== References ==
-{{ABSTRACT_PUBMED_15729334}}
+<references/>
+__TOC__
-==About this Structure==
+</StructureSection>
-BF1 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BF1 OCA].
+[[Category: Large Structures]]
-==Reference==
-<ref group="xtra">PMID:15729334</ref><references group="xtra"/>
 [[Category: Simian immunodeficiency virus]]
-[[Category: Chen, B.]]
+[[Category: Chen B]]
-[[Category: Gong, H.]]
+[[Category: Gong H]]
-[[Category: Harrison, S C.]]
+[[Category: Harrison SC]]
-[[Category: Skehel, J J.]]
+[[Category: Skehel JJ]]
-[[Category: Vogan, E M.]]
+[[Category: Vogan EM]]
-[[Category: Wiley, D C.]]
+[[Category: Wiley DC]]
-[[Category: Aid]]
-[[Category: Coat protein]]
-[[Category: Envelope glycoprotein]]
-[[Category: Gp120]]
-[[Category: Siv]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 20:25:20 2009''