6cdm - Revision history

OCA at 15:01, 4 October 2023

OCA — Wed, 04 Oct 2023 15:01:47 GMT

←Older revision		Revision as of 15:01, 4 October 2023
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	<StructureSection load='6cdm' size='340' side='right'caption='[[6cdm]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='6cdm' size='340' side='right'caption='[[6cdm]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cdm]] is a 6 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=6CDM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6CDM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cdm]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1] 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=6CDM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6CDM FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">[[~~5tkj~~\|~~5tkj~~]]</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]] 2.408Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6cdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cdm OCA], [~~http~~://pdbe.org/6cdm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6cdm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6cdm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6cdm 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=6cdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cdm OCA], [https://pdbe.org/6cdm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6cdm RCSB], [https://www.ebi.ac.uk/pdbsum/6cdm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6cdm ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q2N0S5_9HIV1 Q2N0S5_9HIV1] The envelope glyprotein gp160 precursor down-modulates cell surface CD4 antigen by interacting with it in the endoplasmic reticulum and blocking its transport to the cell surface.[RuleBase:RU004292][SAAS:SAAS00139820] The gp120-gp41 heterodimer allows rapid transcytosis of the virus through CD4 negative cells such as simple epithelial monolayers of the intestinal, rectal and endocervical epithelial barriers. Both gp120 and gp41 specifically recognize glycosphingolipids galactosyl-ceramide (GalCer) or 3' sulfo-galactosyl-ceramide (GalS) present in the lipid rafts structures of epithelial cells. Binding to these alternative receptors allows the rapid transcytosis of the virus through the epithelial cells. This transcytotic vesicle-mediated transport of virions from the apical side to the basolateral side of the epithelial cells does not involve infection of the cells themselves.[SAAS:SAAS00140087]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6cdm" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6cdm" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Kwong~~, P D~~]]	+	[[Category: Kwong PD]]
-	[[Category: Liu, K]]	+	[[Category: Liu K]]
-	[[Category: Xu, K]]	+	[[Category: Xu K]]
-	~~[[Category: Antibody]]~~	+
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Fusion peptide]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Neutralizing~~]]	+

OCA at 08:56, 11 November 2020

OCA — Wed, 11 Nov 2020 08:56:30 GMT

←Older revision		Revision as of 08:56, 11 November 2020
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	==Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519==		==Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519==
-	<StructureSection load='6cdm' size='340' side='right' caption='[[6cdm]], [[Resolution\|resolution]] 2.41Å' scene=''>	+	<StructureSection load='6cdm' size='340' side='right'caption='[[6cdm]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cdm]] is a 6 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=6CDM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6CDM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cdm]] is a 6 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=6CDM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6CDM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tkj\|5tkj]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tkj\|5tkj]]</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=6cdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cdm OCA], [http://pdbe.org/6cdm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cdm RCSB], [http://www.ebi.ac.uk/pdbsum/6cdm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cdm ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6cdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cdm OCA], [http://pdbe.org/6cdm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cdm RCSB], [http://www.ebi.ac.uk/pdbsum/6cdm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cdm 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: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Kwong, P D]]		[[Category: Kwong, P D]]

OCA at 06:30, 20 June 2018

OCA — Wed, 20 Jun 2018 06:30:00 GMT

←Older revision		Revision as of 06:30, 20 June 2018
Line 3:		Line 3:
	<StructureSection load='6cdm' size='340' side='right' caption='[[6cdm]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='6cdm' size='340' side='right' caption='[[6cdm]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cdm]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CDM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CDM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cdm]] is a 6 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=6CDM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CDM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tkj\|5tkj]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tkj\|5tkj]]</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=6cdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cdm OCA], [http://pdbe.org/6cdm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cdm RCSB], [http://www.ebi.ac.uk/pdbsum/6cdm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cdm 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=6cdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cdm OCA], [http://pdbe.org/6cdm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cdm RCSB], [http://www.ebi.ac.uk/pdbsum/6cdm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cdm ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A central goal of HIV-1 vaccine research is the elicitation of antibodies capable of neutralizing diverse primary isolates of HIV-1. Here we show that focusing the immune response to exposed N-terminal residues of the fusion peptide, a critical component of the viral entry machinery and the epitope of antibodies elicited by HIV-1 infection, through immunization with fusion peptide-coupled carriers and prefusion stabilized envelope trimers, induces cross-clade neutralizing responses. In mice, these immunogens elicited monoclonal antibodies capable of neutralizing up to 31% of a cross-clade panel of 208 HIV-1 strains. Crystal and cryoelectron microscopy structures of these antibodies revealed fusion peptide conformational diversity as a molecular explanation for the cross-clade neutralization. Immunization of guinea pigs and rhesus macaques induced similarly broad fusion peptide-directed neutralizing responses, suggesting translatability. The N terminus of the HIV-1 fusion peptide is thus a promising target of vaccine efforts aimed at eliciting broadly neutralizing antibodies.
		+
		+	Epitope-based vaccine design yields fusion peptide-directed antibodies that neutralize diverse strains of HIV-1.,Xu K, Acharya P, Kong R, Cheng C, Chuang GY, Liu K, Louder MK, O'Dell S, Rawi R, Sastry M, Shen CH, Zhang B, Zhou T, Asokan M, Bailer RT, Chambers M, Chen X, Choi CW, Dandey VP, Doria-Rose NA, Druz A, Eng ET, Farney SK, Foulds KE, Geng H, Georgiev IS, Gorman J, Hill KR, Jafari AJ, Kwon YD, Lai YT, Lemmin T, McKee K, Ohr TY, Ou L, Peng D, Rowshan AP, Sheng Z, Todd JP, Tsybovsky Y, Viox EG, Wang Y, Wei H, Yang Y, Zhou AF, Chen R, Yang L, Scorpio DG, McDermott AB, Shapiro L, Carragher B, Potter CS, Mascola JR, Kwong PD Nat Med. 2018 Jun;24(6):857-867. doi: 10.1038/s41591-018-0042-6. Epub 2018 Jun 4. PMID:29867235<ref>PMID:29867235</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6cdm" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Kwong, P D]]		[[Category: Kwong, P D]]
	[[Category: Liu, K]]		[[Category: Liu, K]]

OCA at 05:30, 16 May 2018

OCA — Wed, 16 May 2018 05:30:28 GMT

←Older revision		Revision as of 05:30, 16 May 2018
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-	'''Unreleased structure'''

-	~~The entry 6cdm is ON HOLD until Paper Publication~~	+	==Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519==
-		+	<StructureSection load='6cdm' size='340' side='right' caption='[[6cdm]], [[Resolution\|resolution]] 2.41Å' scene=''>
-	~~Authors: Xu, K., Liu, K., Kwong, P.D.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6cdm]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CDM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CDM FirstGlance]. <br>
-	~~Description:~~ Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tkj\|5tkj]]</td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<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=6cdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cdm OCA], [http://pdbe.org/6cdm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cdm RCSB], [http://www.ebi.ac.uk/pdbsum/6cdm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cdm ProSAT]</span></td></tr>
-	[[Category: Kwong, P.D]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Kwong, P D]]
		+	[[Category: Liu, K]]
	[[Category: Xu, K]]		[[Category: Xu, K]]
-	[[Category: ~~Liu, K~~]]	+	[[Category: Antibody]]
		+	[[Category: Complex]]
		+	[[Category: Fusion peptide]]
		+	[[Category: Immune system]]
		+	[[Category: Neutralizing]]

OCA at 05:00, 28 February 2018

OCA — Wed, 28 Feb 2018 05:00:53 GMT

←Older revision		Revision as of 05:00, 28 February 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Xu, K., Liu, K., Kwong, P.D.		Authors: Xu, K., Liu, K., Kwong, P.D.
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	Description: Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519		Description: Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Liu, K]]
	[[Category: Kwong, P.D]]		[[Category: Kwong, P.D]]
	[[Category: Xu, K]]		[[Category: Xu, K]]
		+	[[Category: Liu, K]]

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

OCA — Thu, 15 Feb 2018 05:25:45 GMT

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

←Older revision

Revision as of 05:25, 15 February 2018

OCA: New page: '''Unreleased structure''' The entry 6cdm is ON HOLD Authors: Xu, K., Liu, K., Kwong, P.D. Description: Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex wit...

OCA — Thu, 15 Feb 2018 05:25:44 GMT

New page: '''Unreleased structure''' The entry 6cdm is ON HOLD Authors: Xu, K., Liu, K., Kwong, P.D. Description: Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex wit...

New page

'''Unreleased structure'''

The entry 6cdm is ON HOLD

Authors: Xu, K., Liu, K., Kwong, P.D.

Description: Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519
[[Category: Unreleased Structures]]
[[Category: Liu, K]]
[[Category: Kwong, P.D]]
[[Category: Xu, K]]