5kg9 - Revision history

OCA at 10:00, 27 September 2023

OCA — Wed, 27 Sep 2023 10:00:25 GMT

←Older revision		Revision as of 10:00, 27 September 2023
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	<StructureSection load='5kg9' size='340' side='right'caption='[[5kg9]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5kg9' size='340' side='right'caption='[[5kg9]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kg9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KG9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KG9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kg9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KG9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KG9 FirstGlance]. <br>
-	</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=5kg9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kg9 OCA], [https://pdbe.org/5kg9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kg9 RCSB], [https://www.ebi.ac.uk/pdbsum/5kg9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kg9 ProSAT]</span></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]] 2.3Å</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=5kg9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kg9 OCA], [https://pdbe.org/5kg9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kg9 RCSB], [https://www.ebi.ac.uk/pdbsum/5kg9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kg9 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Nicely~~, N I]]~~	+	[[Category: Nicely NI]]
-	~~[[Category: Hiv-1 gp120 antibody fab]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 06:44, 24 March 2021

OCA — Wed, 24 Mar 2021 06:44:53 GMT

←Older revision		Revision as of 06:44, 24 March 2021
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	<StructureSection load='5kg9' size='340' side='right'caption='[[5kg9]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5kg9' size='340' side='right'caption='[[5kg9]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kg9]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KG9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KG9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kg9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KG9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KG9 FirstGlance]. <br>
-	</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=5kg9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kg9 OCA], [~~http~~://pdbe.org/5kg9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kg9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kg9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kg9 ProSAT]</span></td></tr>	+	</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=5kg9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kg9 OCA], [https://pdbe.org/5kg9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kg9 RCSB], [https://www.ebi.ac.uk/pdbsum/5kg9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kg9 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 non-human antibody\|3D structures of non-human antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:27, 11 December 2019

OCA — Wed, 11 Dec 2019 16:27:59 GMT

←Older revision		Revision as of 16:27, 11 December 2019
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	==Crystal structure of the gp120 v2 antibody RE505-22 Fab from IGH- and IGK-humanized mouse==		==Crystal structure of the gp120 v2 antibody RE505-22 Fab from IGH- and IGK-humanized mouse==
-	<StructureSection load='5kg9' size='340' side='right' caption='[[5kg9]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='5kg9' size='340' side='right'caption='[[5kg9]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kg9]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KG9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KG9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kg9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KG9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KG9 FirstGlance]. <br>
	</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=5kg9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kg9 OCA], [http://pdbe.org/5kg9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kg9 RCSB], [http://www.ebi.ac.uk/pdbsum/5kg9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kg9 ProSAT]</span></td></tr>		</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=5kg9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kg9 OCA], [http://pdbe.org/5kg9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kg9 RCSB], [http://www.ebi.ac.uk/pdbsum/5kg9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kg9 ProSAT]</span></td></tr>
	</table>		</table>
Line 17:		Line 17:

	==See Also==		==See Also==
-	*[[3D structures ~~of antibody~~\|3D structures ~~of antibody~~]]	+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Nicely, N I]]		[[Category: Nicely, N I]]
	[[Category: Hiv-1 gp120 antibody fab]]		[[Category: Hiv-1 gp120 antibody fab]]
	[[Category: Immune system]]		[[Category: Immune system]]

OCA at 16:56, 9 March 2017

OCA — Thu, 09 Mar 2017 16:56:59 GMT

←Older revision		Revision as of 16:56, 9 March 2017
Line 15:		Line 15:
	</div>		</div>
	<div class="pdbe-citations 5kg9" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5kg9" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 23:33, 25 January 2017

OCA — Wed, 25 Jan 2017 23:33:21 GMT

←Older revision		Revision as of 23:33, 25 January 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5kg9 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of the gp120 v2 antibody RE505-22 Fab from IGH- and IGK-humanized mouse==
		+	<StructureSection load='5kg9' size='340' side='right' caption='[[5kg9]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kg9]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KG9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KG9 FirstGlance]. <br>
		+	</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=5kg9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kg9 OCA], [http://pdbe.org/5kg9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kg9 RCSB], [http://www.ebi.ac.uk/pdbsum/5kg9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kg9 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In the RV144 gp120 HIV vaccine trial, decreased transmission risk was correlated with Abs that reacted with a linear epitope at a lysine residue at position 169 (K169) in the HIV-1 envelope (Env) V2 region. The K169 V2 response was restricted to Abs bearing Vlambda rearrangements that expressed aspartic acid/glutamic acid in CDR L2. The AE.A244 gp120 in AIDSVAX B/E also bound to the unmutated ancestor of a V2-glycan broadly neutralizing Ab, but this Ab type was not induced in the RV144 trial. In this study, we sought to determine whether immunodominance of the V2 linear epitope could be overcome in the absence of human Vlambda rearrangements. We immunized IgH- and Igkappa-humanized mice with the AE.A244 gp120 Env. In these mice, the V2 Ab response was focused on a linear epitope that did not include K169. V2 Abs were isolated that used the same human VH gene segment as an RV144 V2 Ab but paired with a mouse lambda L chain. Structural characterization of one of these V2 Abs revealed how the linear V2 epitope could be engaged, despite the lack of aspartic acid/glutamic acid encoded in the mouse repertoire. Thus, despite the absence of the human Vlambda locus in these humanized mice, the dominance of Vlambda pairing with human VH for HIV-1 Env V2 recognition resulted in human VH pairing with mouse lambda L chains instead of allowing otherwise subdominant V2-glycan broadly neutralizing Abs to develop.

-	~~Authors:~~ Nicely, N.I.	+	Immunodominance of Antibody Recognition of the HIV Envelope V2 Region in Ig-Humanized Mice.,Wiehe K, Nicely NI, Lockwood B, Kuraoka M, Anasti K, Arora S, Bowman CM, Stolarchuk C, Parks R, Lloyd KE, Xia SM, Duffy R, Shen X, Kyratsous CA, Macdonald LE, Murphy AJ, Scearce RM, Moody MA, Alam SM, Verkoczy L, Tomaras GD, Kelsoe G, Haynes BF J Immunol. 2017 Feb 1;198(3):1047-1055. doi: 10.4049/jimmunol.1601640. Epub 2016 , Dec 23. PMID:28011932<ref>PMID:28011932</ref>

-	~~Description: Crystal structure~~ of the ~~gp120 v2 antibody RE505~~-~~22 Fab from IGH~~-~~and IGK-humanized mouse~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Nicely, N.I~~]]	+	<div class="pdbe-citations 5kg9" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Nicely, N I]]
		+	[[Category: Hiv-1 gp120 antibody fab]]
		+	[[Category: Immune system]]

OCA: Protected "5kg9" [edit=sysop:move=sysop]

OCA — Thu, 23 Jun 2016 21:33:45 GMT

Protected "5kg9" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:33, 23 June 2016

OCA: New page: '''Unreleased structure''' The entry 5kg9 is ON HOLD until Paper Publication Authors: Nicely, N.I. Description: Crystal structure of the gp120 v2 antibody RE505-22 Fab from IGH-and IGK...

OCA — Thu, 23 Jun 2016 21:33:43 GMT

New page: '''Unreleased structure''' The entry 5kg9 is ON HOLD until Paper Publication Authors: Nicely, N.I. Description: Crystal structure of the gp120 v2 antibody RE505-22 Fab from IGH-and IGK...

New page

'''Unreleased structure'''

The entry 5kg9 is ON HOLD until Paper Publication

Authors: Nicely, N.I.

Description: Crystal structure of the gp120 v2 antibody RE505-22 Fab from IGH-and IGK-humanized mouse
[[Category: Unreleased Structures]]
[[Category: Nicely, N.I]]