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3fus

From Proteopedia

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[[Image:3fus.png|left|200px]]
 
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==Improved Structure of the Unliganded Simian Immunodeficiency Virus gp120 Core==
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The line below this paragraph, containing "STRUCTURE_3fus", creates the "Structure Box" on the page.
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<StructureSection load='3fus' size='340' side='right'caption='[[3fus]], [[Resolution|resolution]] 4.00&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'>[[3fus]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Civ Civ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FUS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FUS FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=FUL:BETA-L-FUCOSE'>FUL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
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-->
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2bf1|2bf1]]</div></td></tr>
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{{STRUCTURE_3fus| PDB=3fus | SCENE= }}
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">env ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11723 CIV])</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=3fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fus OCA], [https://pdbe.org/3fus PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fus RCSB], [https://www.ebi.ac.uk/pdbsum/3fus PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fus ProSAT]</span></td></tr>
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</table>
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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/fu/3fus_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3fus 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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HIV/SIV envelope glycoproteins mediate the first steps in viral infection. They are trimers of a membrane-anchored polypeptide chain, cleaved into two fragments known as gp120 and gp41. The structure of HIV gp120 bound with receptor (CD4) has been known for some time. We have now determined the structure of a fully glycosylated SIV gp120 envelope glycoprotein in an unliganded conformation by X-ray crystallography at 4.0 A resolution. We describe here our experimental and computational approaches, which may be relevant to other resolution-limited crystallographic problems. Key issues were attention to details of beam geometry mandated by small, weakly diffracting crystals, and choice of strategies for phase improvement, starting with two isomorphous derivatives and including multicrystal averaging. We validated the structure by analyzing composite omit maps, averaged among three distinct crystal lattices, and by calculating model-based, SeMet anomalous difference maps. There are at least four ordered sugars on many of the thirteen oligosaccharides.
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===Improved Structure of the Unliganded Simian Immunodeficiency Virus gp120 Core===
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Determining the structure of an unliganded and fully glycosylated SIV gp120 envelope glycoprotein.,Chen B, Vogan EM, Gong H, Skehel JJ, Wiley DC, Harrison SC Structure. 2005 Feb;13(2):197-211. PMID:15698564<ref>PMID:15698564</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 3fus" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_15698564}}, adds the Publication Abstract to the page
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*[[Gp120 3D structures|Gp120 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 15698564 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_15698564}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Civ]]
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[[3fus]] is a 1 chain structure with 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=3FUS OCA].
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[[Category: Large Structures]]
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[[Category: Chen, X]]
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==Reference==
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[[Category: Ma, J]]
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<ref group="xtra">PMID:015698564</ref><ref group="xtra">PMID:019307715</ref><references group="xtra"/>
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[[Category: Poon, B]]
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[[Category: Simian immunodeficiency virus]]
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[[Category: Wang, Q]]
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[[Category: Chen, X.]]
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[[Category: Ma, J.]]
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[[Category: Poon, B.]]
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[[Category: Wang, Q.]]
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[[Category: Aid]]
[[Category: Aid]]
[[Category: Apoptosis]]
[[Category: Apoptosis]]

Current revision

Improved Structure of the Unliganded Simian Immunodeficiency Virus gp120 Core

PDB ID 3fus

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