3dnn

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{{Seed}}
 
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[[Image:3dnn.png|left|200px]]
 
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==Molecular structure for the HIV-1 gp120 trimer in the unliganded state==
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The line below this paragraph, containing "STRUCTURE_3dnn", creates the "Structure Box" on the page.
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<SX load='3dnn' size='340' side='right' viewer='molstar' caption='[[3dnn]], [[Resolution|resolution]] 20.00&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'>[[3dnn]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/HIV-1_M:B_HXB2R HIV-1 M:B_HXB2R]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DNN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DNN 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">Electron Microscopy, [[Resolution|Resolution]] 20&#8491;</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=3dnn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dnn OCA], [https://pdbe.org/3dnn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dnn RCSB], [https://www.ebi.ac.uk/pdbsum/3dnn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dnn ProSAT]</span></td></tr>
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{{STRUCTURE_3dnn| PDB=3dnn | SCENE= }}
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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/dn/3dnn_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=3dnn 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 envelope glycoproteins (Env) of human and simian immunodeficiency viruses (HIV and SIV, respectively) mediate virus binding to the cell surface receptor CD4 on target cells to initiate infection. Env is a heterodimer of a transmembrane glycoprotein (gp41) and a surface glycoprotein (gp120), and forms trimers on the surface of the viral membrane. Using cryo-electron tomography combined with three-dimensional image classification and averaging, we report the three-dimensional structures of trimeric Env displayed on native HIV-1 in the unliganded state, in complex with the broadly neutralizing antibody b12 and in a ternary complex with CD4 and the 17b antibody. By fitting the known crystal structures of the monomeric gp120 core in the b12- and CD4/17b-bound conformations into the density maps derived by electron tomography, we derive molecular models for the native HIV-1 gp120 trimer in unliganded and CD4-bound states. We demonstrate that CD4 binding results in a major reorganization of the Env trimer, causing an outward rotation and displacement of each gp120 monomer. This appears to be coupled with a rearrangement of the gp41 region along the central axis of the trimer, leading to closer contact between the viral and target cell membranes. Our findings elucidate the structure and conformational changes of trimeric HIV-1 gp120 relevant to antibody neutralization and attachment to target cells.
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===Molecular structure for the HIV-1 gp120 trimer in the unliganded state===
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Molecular architecture of native HIV-1 gp120 trimers.,Liu J, Bartesaghi A, Borgnia MJ, Sapiro G, Subramaniam S Nature. 2008 Sep 4;455(7209):109-13. Epub 2008 Jul 30. PMID:18668044<ref>PMID:18668044</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 3dnn" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_18668044}}, 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 18668044 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18668044}}
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__TOC__
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</SX>
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==About this Structure==
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[[Category: HIV-1 M:B_HXB2R]]
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3DNN is a 9 chains structure of sequences from [http://en.wikipedia.org/wiki/Hiv-1_m:b_hxb2r Hiv-1 m:b_hxb2r]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DNN OCA].
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[[Category: Large Structures]]
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[[Category: Bartesaghi A]]
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==Reference==
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[[Category: Borgnia MJ]]
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<ref group="xtra">PMID:18668044</ref><references group="xtra"/>
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[[Category: Liu J]]
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[[Category: Hiv-1 m:b_hxb2r]]
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[[Category: Sapiro G]]
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[[Category: Bartesaghi, A.]]
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[[Category: Subramaniam S]]
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[[Category: Borgnia, M J.]]
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[[Category: Liu, J.]]
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[[Category: Sapiro, G.]]
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[[Category: Subramaniam, S.]]
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[[Category: Aid]]
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[[Category: Apoptosis]]
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[[Category: Cleavage on pair of basic residue]]
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[[Category: Coiled coil]]
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[[Category: Envelope glycoprotein]]
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[[Category: Envelope protein]]
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[[Category: Fusion protein]]
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[[Category: Gp120]]
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[[Category: Hiv-1]]
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[[Category: Host-virus interaction]]
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[[Category: Immunodeficiency virus]]
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[[Category: Lipoprotein]]
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[[Category: Membrane]]
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[[Category: Palmitate]]
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[[Category: Viral immunoevasion]]
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[[Category: Viral protein]]
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[[Category: Virion]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:37:41 2009''
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Current revision

Molecular structure for the HIV-1 gp120 trimer in the unliganded state

3dnn, resolution 20.00Å

Proteopedia Page Contributors and Editors (what is this?)

OCA

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