3ghb

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "3ghb" [edit=sysop:move=sysop])
Current revision (01:51, 21 November 2024) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3ghb.png|left|200px]]
 
-
{{STRUCTURE_3ghb| PDB=3ghb | SCENE= }}
+
==Crystal structure of anti-HIV-1 Fab 447-52D in complex with V3 peptide W2RW020==
 +
<StructureSection load='3ghb' size='340' side='right'caption='[[3ghb]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[3ghb]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GHB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GHB FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.25&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
 +
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ghb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghb OCA], [https://pdbe.org/3ghb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ghb RCSB], [https://www.ebi.ac.uk/pdbsum/3ghb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ghb ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/P88213_9HIV1 P88213_9HIV1]
 +
== 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/gh/3ghb_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=3ghb ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Human monoclonal antibodies 447-52D and 537-10D, both coded by the VH3 gene and specific for the third variable region (V3) of the HIV-1 gp120, were found to share antigen-binding structural elements including an elongated CDR H3 forming main-chain interactions with the N terminus of the V3 crown. However, water-mediated hydrogen bonds and a unique cation-pi sandwich stacking allow 447-52D to be broadly reactive with V3 containing both the GPGR and GPGQ crown motifs, while the deeper binding pocket and a buried Glu in the binding site of 537-10D limit its reactivity to only V3 containing the GPGR motif. Our results suggest that the design of immunogens for anti-V3 antibodies should avoid the Arg at the V3 crown, as GPGR-containing epitopes appear to select for B cells making antibodies of narrower specificity than V3 that carry Gln at this position.
-
===Crystal structure of anti-HIV-1 Fab 447-52D in complex with V3 peptide W2RW020===
+
Structural basis of the cross-reactivity of genetically related human anti-HIV-1 mAbs: implications for design of V3-based immunogens.,Burke V, Williams C, Sukumaran M, Kim SS, Li H, Wang XH, Gorny MK, Zolla-Pazner S, Kong XP Structure. 2009 Nov 11;17(11):1538-46. PMID:19913488<ref>PMID:19913488</ref>
-
{{ABSTRACT_PUBMED_19913488}}
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
 
+
</div>
-
==About this Structure==
+
<div class="pdbe-citations 3ghb" style="background-color:#fffaf0;"></div>
-
[[3ghb]] is a 6 chain structure of [[Antibody]] 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=3GHB OCA].
+
==See Also==
==See Also==
-
*[[Antibody|Antibody]]
+
*[[Antibody 3D structures|Antibody 3D structures]]
-
 
+
*[[3D structures of human antibody|3D structures of human antibody]]
-
==Reference==
+
== References ==
-
<ref group="xtra">PMID:019913488</ref><references group="xtra"/>
+
<references/>
 +
__TOC__
 +
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Burke, V J.]]
+
[[Category: Human immunodeficiency virus 1]]
-
[[Category: Kong, X P.]]
+
[[Category: Large Structures]]
-
[[Category: Antibody-antigen interaction]]
+
[[Category: Burke VJ]]
-
[[Category: Envelope protein]]
+
[[Category: Kong XP]]
-
[[Category: Hiv]]
+
-
[[Category: Immune system]]
+
-
[[Category: V3 loop]]
+

Current revision

Crystal structure of anti-HIV-1 Fab 447-52D in complex with V3 peptide W2RW020

PDB ID 3ghb

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ghb"
Personal tools