7ucf - Revision history

OCA at 17:13, 18 October 2023

OCA — Wed, 18 Oct 2023 17:13:56 GMT

←Older revision		Revision as of 17:13, 18 October 2023
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	==Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fab fragments 10-1074 and BG24==		==Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fab fragments 10-1074 and BG24==
-	<StructureSection load='7ucf' size='340' side='right'caption='[[7ucf]]' scene=''>	+	<StructureSection load='7ucf' size='340' side='right'caption='[[7ucf]], [[Resolution\|resolution]] 4.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7UCF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7UCF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ucf]] 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=7UCF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7UCF 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=7ucf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ucf OCA], [https://pdbe.org/7ucf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ucf RCSB], [https://www.ebi.ac.uk/pdbsum/7ucf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ucf 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]] 4Å</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=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=7ucf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ucf OCA], [https://pdbe.org/7ucf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ucf RCSB], [https://www.ebi.ac.uk/pdbsum/7ucf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ucf ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q2N0S6_9HIV1 Q2N0S6_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 (By similarity).[RuleBase:RU004292][SAAS:SAAS000328_004_020447] 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 (By similarity).[SAAS:SAAS000328_004_240990]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The induction of broadly neutralizing antibodies (bNAbs) is a potential strategy for a vaccine against HIV-1. However, most bNAbs exhibit features such as unusually high somatic hypermutation, including insertions and deletions, which make their induction challenging. VRC01-class bNAbs not only exhibit extraordinary breadth and potency but also rank among the most highly somatically mutated bNAbs. Here, we describe a VRC01-class antibody isolated from a viremic controller, BG24, that is much less mutated than most relatives of its class while achieving comparable breadth and potency. A 3.8-A x-ray crystal structure of a BG24-BG505 Env trimer complex revealed conserved contacts at the gp120 interface characteristic of the VRC01-class Abs, despite lacking common CDR3 sequence motifs. The existence of moderately mutated CD4-binding site (CD4bs) bNAbs such as BG24 provides a simpler blueprint for CD4bs antibody induction by a vaccine, raising the prospect that such an induction might be feasible with a germline-targeting approach.
		+
		+	A naturally arising broad and potent CD4-binding site antibody with low somatic mutation.,Barnes CO, Schoofs T, Gnanapragasam PNP, Golijanin J, Huey-Tubman KE, Gruell H, Schommers P, Suh-Toma N, Lee YE, Cetrulo Lorenzi JC, Piechocka-Trocha A, Scheid JF, West AP Jr, Walker BD, Seaman MS, Klein F, Nussenzweig MC, Bjorkman PJ Sci Adv. 2022 Aug 12;8(32):eabp8155. doi: 10.1126/sciadv.abp8155. Epub 2022 Aug, 12. PMID:35960796<ref>PMID:35960796</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ucf" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Gp120 3D structures\|Gp120 3D structures]]
		+	*[[Gp41 3D Structures\|Gp41 3D Structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Barnes CO]]		[[Category: Barnes CO]]
	[[Category: Bjorkman PJ]]		[[Category: Bjorkman PJ]]

OCA at 11:10, 31 August 2022

OCA — Wed, 31 Aug 2022 11:10:50 GMT

←Older revision		Revision as of 11:10, 31 August 2022
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-	====	+	==Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fab fragments 10-1074 and BG24==
	<StructureSection load='7ucf' size='340' side='right'caption='[[7ucf]]' scene=''>		<StructureSection load='7ucf' size='340' side='right'caption='[[7ucf]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7UCF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7UCF 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=7ucf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ucf OCA], [https://pdbe.org/7ucf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ucf RCSB], [https://www.ebi.ac.uk/pdbsum/7ucf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ucf 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=7ucf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ucf OCA], [https://pdbe.org/7ucf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ucf RCSB], [https://www.ebi.ac.uk/pdbsum/7ucf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ucf ProSAT]</span></td></tr>
	</table>		</table>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Barnes CO]]
		+	[[Category: Bjorkman PJ]]

OCA at 06:20, 18 August 2022

OCA — Thu, 18 Aug 2022 06:20:22 GMT

←Older revision		Revision as of 06:20, 18 August 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7ucf ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7ucf' size='340' side='right'caption='[[7ucf]]' scene=''>
-	~~Authors~~: ~~Barnes, C~~.O.~~, Bjorkman, P~~.J.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~Structure of the BG505 SOSIP~~.~~664 trimer in complex with neutralizing antibody Fab fragments 10~~-~~1074 and BG24~~	+	</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=7ucf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ucf OCA], [https://pdbe.org/7ucf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ucf RCSB], [https://www.ebi.ac.uk/pdbsum/7ucf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ucf ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: ~~Barnes, C.O~~]]	+	__TOC__
-	[[Category: ~~Bjorkman, P.J~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 16:19, 27 July 2022

OCA — Wed, 27 Jul 2022 16:19:28 GMT

←Older revision		Revision as of 16:19, 27 July 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ucf is ON HOLD	+	The entry 7ucf is ON HOLD until Paper Publication

	Authors: Barnes, C.O., Bjorkman, P.J.		Authors: Barnes, C.O., Bjorkman, P.J.

OCA: Protected "7ucf" [edit=sysop:move=sysop]

OCA — Wed, 23 Mar 2022 09:53:39 GMT

Protected "7ucf" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:53, 23 March 2022

OCA: New page: '''Unreleased structure''' The entry 7ucf is ON HOLD Authors: Barnes, C.O., Bjorkman, P.J. Description: Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fa...

OCA — Wed, 23 Mar 2022 09:53:38 GMT

New page: '''Unreleased structure''' The entry 7ucf is ON HOLD Authors: Barnes, C.O., Bjorkman, P.J. Description: Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fa...

New page

'''Unreleased structure'''

The entry 7ucf is ON HOLD

Authors: Barnes, C.O., Bjorkman, P.J.

Description: Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fab fragments 10-1074 and BG24
[[Category: Unreleased Structures]]
[[Category: Barnes, C.O]]
[[Category: Bjorkman, P.J]]