4rqq - Revision history

OCA at 17:54, 20 September 2023

OCA — Wed, 20 Sep 2023 17:54:05 GMT

←Older revision		Revision as of 17:54, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4rqq]] is a 6 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=4RQQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RQQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4rqq]] is a 6 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=4RQQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RQQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 3.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</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=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [https://pdbe.org/4rqq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [https://www.ebi.ac.uk/pdbsum/4rqq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rqq ProSAT]</span></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=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [https://pdbe.org/4rqq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [https://www.ebi.ac.uk/pdbsum/4rqq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rqq ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:24, 8 March 2023

OCA — Wed, 08 Mar 2023 08:24:44 GMT

←Older revision		Revision as of 08:24, 8 March 2023
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	<StructureSection load='4rqq' size='340' side='right'caption='[[4rqq]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='4rqq' size='340' side='right'caption='[[4rqq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rqq]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RQQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4RQQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rqq]] is a 6 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=4RQQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RQQ FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3u1s\|3u1s]]~~</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=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [https://pdbe.org/4rqq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [https://www.ebi.ac.uk/pdbsum/4rqq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rqq ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [~~http~~://pdbe.org/4rqq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4rqq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4rqq ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Sandbox 20009\|Sandbox 20009]]
		+	*[[3D structures of human antibody\|3D structures of human antibody]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Julien, J P]]	+	[[Category: Julien J-P]]
-	[[Category: Wilson~~, I A]]~~	+	[[Category: Wilson IA]]
-	~~[[Category: Anti-hiv-1 antibody]]~~	+
-	~~[[Category: Hiv-1 env trimer]]~~	+
-	~~[[Category: Igg]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 09:48, 1 May 2019

OCA — Wed, 01 May 2019 09:48:54 GMT

←Older revision		Revision as of 09:48, 1 May 2019
Line 1:		Line 1:

	==Crystal structure of human Fab PGDM1400, a broadly reactive and potent HIV-1 neutralizing antibody==		==Crystal structure of human Fab PGDM1400, a broadly reactive and potent HIV-1 neutralizing antibody==
-	<StructureSection load='4rqq' size='340' side='right' caption='[[4rqq]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<StructureSection load='4rqq' size='340' side='right'caption='[[4rqq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RQQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RQQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rqq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RQQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RQQ FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3u1s\|3u1s]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3u1s\|3u1s]]</td></tr>
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	</div>		</div>
	<div class="pdbe-citations 4rqq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4rqq" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Julien, J P]]		[[Category: Julien, J P]]
	[[Category: Wilson, I A]]		[[Category: Wilson, I A]]

OCA at 09:27, 5 August 2016

OCA — Fri, 05 Aug 2016 09:27:31 GMT

←Older revision		Revision as of 09:27, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of human Fab PGDM1400, a broadly reactive and potent HIV-1 neutralizing antibody==		==Crystal structure of human Fab PGDM1400, a broadly reactive and potent HIV-1 neutralizing antibody==
	<StructureSection load='4rqq' size='340' side='right' caption='[[4rqq]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='4rqq' size='340' side='right' caption='[[4rqq]], [[Resolution\|resolution]] 3.10Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3u1s\|3u1s]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3u1s\|3u1s]]</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [http://www.ebi.ac.uk/pdbsum/4rqq PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [http://pdbe.org/4rqq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [http://www.ebi.ac.uk/pdbsum/4rqq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rqq ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4rqq" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:28, 10 December 2014

OCA — Wed, 10 Dec 2014 12:28:34 GMT

←Older revision		Revision as of 12:28, 10 December 2014
Line 7:		Line 7:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [http://www.ebi.ac.uk/pdbsum/4rqq PDBsum]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [http://www.ebi.ac.uk/pdbsum/4rqq PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Broadly neutralizing antibodies (bnAbs) targeting the trimer apex of HIV envelope are favored candidates for vaccine design and immunotherapy because of their great neutralization breadth and potency. However, methods of isolating bnAbs against this site have been limited by the quaternary nature of the epitope region. Here we report the use of a recombinant HIV envelope trimer, BG505 SOSIP.664 gp140, as an affinity reagent to isolate quaternary-dependent bnAbs from the peripheral blood mononuclear cells of a chronically infected donor. The newly isolated bnAbs, named "PGDM1400-1412," show a wide range of neutralization breadth and potency. One of these variants, PGDM1400, is exceptionally broad and potent with cross-clade neutralization coverage of 83% at a median IC50 of 0.003 microg/mL. Overall, our results highlight the utility of BG505 SOSIP.664 gp140 as a tool for the isolation of quaternary-dependent antibodies and reveal a mosaic of antibody responses against the trimer apex within a clonal family.
		+
		+	Recombinant HIV envelope trimer selects for quaternary-dependent antibodies targeting the trimer apex.,Sok D, van Gils MJ, Pauthner M, Julien JP, Saye-Francisco KL, Hsueh J, Briney B, Lee JH, Le KM, Lee PS, Hua Y, Seaman MS, Moore JP, Ward AB, Wilson IA, Sanders RW, Burton DR Proc Natl Acad Sci U S A. 2014 Nov 24. pii: 201415789. PMID:25422458<ref>PMID:25422458</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA: Protected "4rqq" [edit=sysop:move=sysop]

OCA — Wed, 19 Nov 2014 12:57:39 GMT

Protected "4rqq" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:57, 19 November 2014

OCA: New page: ==Crystal structure of human Fab PGDM1400, a broadly reactive and potent HIV-1 neutralizing antibody== == Structural highlights ==
<table><tr><td colspan='2'>[[4rqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RQQ OCA]. For a guided tour on the structure components use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RQQ FirstGlance]. 
</td></tr><tr id='NonStdRes'><td class="sblockLbl">[[Non-Standard_Residue|NonStd Res:]]</td><td class="sblockDat"><scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>
<tr id='related'><td class="sblockLbl">[[Related_structure|Related:]]</td><td class="sblockDat">[[3u1s|3u1s]]</td></tr>
<tr id='resources'><td class="sblockLbl">Resources:</td><td class="sblockDat">[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4rqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rqq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rqq RCSB], [http://www.ebi.ac.uk/pdbsum/4rqq PDBsum]</td></tr>
</table>
TOC
</StructureSection>
[[Category: Julien, J P]]
[[Category: Wilson, I A]]
[[Category: Anti-hiv-1 antibody]]
[[Category: Hiv-1 env trimer]]
[[Category: Igg]]
[[Category: Immune system]]