3q6f: Difference between revisions

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[[Image:3q6f.jpg|left|200px]]


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==Crystal structure of Fab of human mAb 2909 specific for quaternary neutralizing epitope of HIV-1 gp120==
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<StructureSection load='3q6f' size='340' side='right'caption='[[3q6f]], [[Resolution|resolution]] 3.19&Aring;' scene=''>
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== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3q6f]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q6F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3Q6F 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]] 3.192&#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=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>
{{STRUCTURE_3q6f|  PDB=3q6f  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3q6f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q6f OCA], [https://pdbe.org/3q6f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3q6f RCSB], [https://www.ebi.ac.uk/pdbsum/3q6f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3q6f ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The quaternary neutralizing epitope (QNE) of HIV-1 gp120 is preferentially expressed on the trimeric envelope spikes of intact HIV virions, and QNE-specific monoclonal antibodies (mAbs) potently neutralize HIV-1. Here, we present the crystal structures of the Fabs of human mAb 2909 and macaque mAb 2.5B. Both mAbs have long beta hairpin CDR H3 regions &gt;20 A in length that are each situated at the center of their respective antigen-binding sites. Computational analysis showed that the paratopes include the whole CDR H3, while additional CDR residues form shallow binding pockets. Structural modeling suggests a way to understand the configuration of QNEs and the antigen-antibody interaction for QNE mAbs. Our data will be useful in designing immunogens that may elicit potent neutralizing QNE Abs.


===Crystal structure of Fab of human mAb 2909 specific for quaternary neutralizing epitope of HIV-1 gp120===
Structural Analysis of Human and Macaque mAbs 2909 and 2.5B: Implications for the Configuration of the Quaternary Neutralizing Epitope of HIV-1 gp120.,Spurrier B, Sampson JM, Totrov M, Li H, O'Neal T, Williams C, Robinson J, Gorny MK, Zolla-Pazner S, Kong XP Structure. 2011 May 11;19(5):691-9. PMID:21565703<ref>PMID:21565703</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3q6f" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_21565703}}, adds the Publication Abstract to the page
*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 21565703 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_21565703}}
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</StructureSection>
==About this Structure==
[[3q6f]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q6F OCA].
 
==Reference==
<ref group="xtra">PMID:021565703</ref><references group="xtra"/>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Gorny, M K.]]
[[Category: Large Structures]]
[[Category: Kong, X P.]]
[[Category: Gorny MK]]
[[Category: Li, H.]]
[[Category: Kong XP]]
[[Category: Neal, T O.]]
[[Category: Li H]]
[[Category: Robinson, J.]]
[[Category: O'Neal T]]
[[Category: Sampson, J.]]
[[Category: Robinson J]]
[[Category: Spurrier, B.]]
[[Category: Sampson J]]
[[Category: Totrov, M.]]
[[Category: Spurrier B]]
[[Category: William, C.]]
[[Category: Totrov M]]
[[Category: Zolla-Pazner, S.]]
[[Category: William C]]
[[Category: Zolla-Pazner S]]
Retrieved from "https://proteopedia.org/3q6f"