6cxg - Revision history

OCA at 15:13, 4 October 2023

2023-10-04T15:13:18Z

←Older revision		Revision as of 15:13, 4 October 2023
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	<StructureSection load='6cxg' size='340' side='right'caption='[[6cxg]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='6cxg' size='340' side='right'caption='[[6cxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cxg]] 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=6CXG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6CXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cxg]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6CXG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=BMA:BETA~~-~~D-MANNOSE'>BMA</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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]] 2.298Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUC:S,S-BUTYLTHIOCYSTEINE'>BUC</scene>, <scene name='pdbligand=FOD:'>FOD</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=BUC:S,S-BUTYLTHIOCYSTEINE'>BUC</scene>, <scene name='pdbligand=FOD:(2S)-2-amino-4-[1-(trans-4-hydroxycyclohexyl)-1H-1,2,3-triazol-4-yl]butanoic+acid'>FOD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></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=6cxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxg OCA], [~~http~~://pdbe.org/6cxg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6cxg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6cxg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxg 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=6cxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxg OCA], [https://pdbe.org/6cxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6cxg RCSB], [https://www.ebi.ac.uk/pdbsum/6cxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxg ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 6cxg" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6cxg" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Stanfield, R L~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Wilson, I A~~]]	+	[[Category: Stanfield RL]]
-	[[Category: ~~Antibody]]~~	+	[[Category: Wilson IA]]
-	~~[[Category: Glycobiology]]~~	+
-	~~[[Category: Glycopeptide]]~~	+
-	~~[[Category: Hiv-1]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 08:20, 20 March 2019

2019-03-20T08:20:25Z

←Older revision		Revision as of 08:20, 20 March 2019
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	==anti-HIV-1 Fab 2G12 in complex with glycopeptide 10V1S==		==anti-HIV-1 Fab 2G12 in complex with glycopeptide 10V1S==
-	<StructureSection load='6cxg' size='340' side='right' caption='[[6cxg]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='6cxg' size='340' side='right'caption='[[6cxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6cxg]] 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=6CXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXG FirstGlance]. <br>		<table><tr><td colspan='2'>[[6cxg]] 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=6CXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXG FirstGlance]. <br>
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	<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=6cxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxg OCA], [http://pdbe.org/6cxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cxg RCSB], [http://www.ebi.ac.uk/pdbsum/6cxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxg 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=6cxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxg OCA], [http://pdbe.org/6cxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cxg RCSB], [http://www.ebi.ac.uk/pdbsum/6cxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxg ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Up to approximately 20% of HIV-infected individuals eventually develop broadly neutralizing antibodies (bnAbs), and many of these antibodies ( approximately 40%) target a region of dense high-mannose glycosylation on gp120 of the HIV envelope protein, known as the "high-mannose patch" (HMP). Thus, there have been numerous attempts to develop glycoconjugate vaccine immunogens that structurally mimic the HMP and might elicit bnAbs targeting this conserved neutralization epitope. Herein, we report on the immunogenicity of glycopeptides, designed by in vitro selection, that bind tightly to anti-HMP antibody 2G12. By analyzing the fine carbohydrate specificity of rabbit antibodies elicited by these immunogens, we found that they differ from some natural human bnAbs, such as 2G12 and PGT128, in that they bind primarily to the core structures within the glycan, rather than to the Manalpha1 --> 2Man termini (2G12) or to the whole glycan (PGT128). Antibody specificity for the glycan core may result from extensive serum mannosidase trimming of the immunogen in the vaccinated animals. This finding has broad implications for vaccine design aiming to target glycan-dependent HIV neutralizing antibodies.
		+
		+	Oligomannose Glycopeptide Conjugates Elicit Antibodies Targeting the Glycan Core Rather than Its Extremities.,Nguyen DN, Xu B, Stanfield RL, Bailey JK, Horiya S, Temme JS, Leon DR, LaBranche CC, Montefiori DC, Costello CE, Wilson IA, Krauss IJ ACS Cent Sci. 2019 Feb 27;5(2):237-249. doi: 10.1021/acscentsci.8b00588. Epub, 2019 Feb 6. PMID:30834312<ref>PMID:30834312</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6cxg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Stanfield, R L]]		[[Category: Stanfield, R L]]
	[[Category: Wilson, I A]]		[[Category: Wilson, I A]]

OCA at 15:55, 27 February 2019

2019-02-27T15:55:29Z

←Older revision		Revision as of 15:55, 27 February 2019
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	<StructureSection load='6cxg' size='340' side='right' caption='[[6cxg]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='6cxg' size='340' side='right' caption='[[6cxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cxg]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cxg]] 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=6CXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUC:S,S-BUTYLTHIOCYSTEINE'>BUC</scene>, <scene name='pdbligand=FOD:'>FOD</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUC:S,S-BUTYLTHIOCYSTEINE'>BUC</scene>, <scene name='pdbligand=FOD:'>FOD</scene></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Stanfield, R L]]		[[Category: Stanfield, R L]]
	[[Category: Wilson, I A]]		[[Category: Wilson, I A]]

OCA at 06:37, 21 February 2019

2019-02-21T06:37:34Z

←Older revision		Revision as of 06:37, 21 February 2019
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-	'''Unreleased structure'''

-	~~The entry 6cxg is ON HOLD until Paper Publication~~	+	==anti-HIV-1 Fab 2G12 in complex with glycopeptide 10V1S==
-		+	<StructureSection load='6cxg' size='340' side='right' caption='[[6cxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
-	~~Authors: Stanfield, R.L., Wilson, I.A.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6cxg]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXG FirstGlance]. <br>
-	~~Description:~~ anti-HIV-1 Fab 2G12 in complex with glycopeptide 10V1S	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUC:S,S-BUTYLTHIOCYSTEINE'>BUC</scene>, <scene name='pdbligand=FOD:'>FOD</scene></td></tr>
-	[[Category: Stanfield, R.L]]	+	<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=6cxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxg OCA], [http://pdbe.org/6cxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cxg RCSB], [http://www.ebi.ac.uk/pdbsum/6cxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxg ProSAT]</span></td></tr>
-	[[Category: Wilson, I.A]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Stanfield, R L]]
		+	[[Category: Wilson, I A]]
		+	[[Category: Antibody]]
		+	[[Category: Glycobiology]]
		+	[[Category: Glycopeptide]]
		+	[[Category: Hiv-1]]
		+	[[Category: Immune system]]

OCA at 04:03, 25 April 2018

2018-04-25T04:03:23Z

←Older revision		Revision as of 04:03, 25 April 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6cxg is ON HOLD	+	The entry 6cxg is ON HOLD until Paper Publication

	Authors: Stanfield, R.L., Wilson, I.A.		Authors: Stanfield, R.L., Wilson, I.A.

OCA: Protected "6cxg" [edit=sysop:move=sysop]

2018-04-11T12:32:08Z

Protected "6cxg" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:32, 11 April 2018

OCA: New page: '''Unreleased structure''' The entry 6cxg is ON HOLD Authors: Stanfield, R.L., Wilson, I.A. Description: anti-HIV-1 Fab 2G12 in complex with glycopeptide 10V1S [[Category: Unreleased S...

2018-04-11T12:32:07Z

New page: '''Unreleased structure''' The entry 6cxg is ON HOLD Authors: Stanfield, R.L., Wilson, I.A. Description: anti-HIV-1 Fab 2G12 in complex with glycopeptide 10V1S [[Category: Unreleased S...

New page

'''Unreleased structure'''

The entry 6cxg is ON HOLD

Authors: Stanfield, R.L., Wilson, I.A.

Description: anti-HIV-1 Fab 2G12 in complex with glycopeptide 10V1S
[[Category: Unreleased Structures]]
[[Category: Stanfield, R.L]]
[[Category: Wilson, I.A]]