6ch9 - Revision history

OCA at 15:04, 4 October 2023

OCA — Wed, 04 Oct 2023 15:04:48 GMT

←Older revision		Revision as of 15:04, 4 October 2023
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	<StructureSection load='6ch9' size='340' side='right'caption='[[6ch9]], [[Resolution\|resolution]] 4.85Å' scene=''>		<StructureSection load='6ch9' size='340' side='right'caption='[[6ch9]], [[Resolution\|resolution]] 4.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ch9]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~9hiv1 9hiv1~~] and [~~http~~://en.wikipedia.org/wiki/Human ~~Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CH9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6CH9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ch9]] 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=6CH9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6CH9 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=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 4.85Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">env ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])~~</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=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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6ch9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ch9 OCA], [~~http~~://pdbe.org/6ch9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ch9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ch9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ch9 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=6ch9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ch9 OCA], [https://pdbe.org/6ch9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ch9 RCSB], [https://www.ebi.ac.uk/pdbsum/6ch9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ch9 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B3UEZ6_9HIV1 B3UEZ6_9HIV1]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	*[[Gp120 3D structures\|Gp120 3D structures]]		*[[Gp120 3D structures\|Gp120 3D structures]]
	*[[Gp41 3D Structures\|Gp41 3D Structures]]		*[[Gp41 3D Structures\|Gp41 3D Structures]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Human]]	+	[[Category: Homo sapiens]]
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Barnes~~, C O~~]]	+	[[Category: Barnes CO]]
-	[[Category: Bjorkman~~, P J]]~~	+	[[Category: Bjorkman PJ]]
-	~~[[Category: Broadly neutralizing antibody]]~~	+
-	~~[[Category: Env glycoprotein]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 09:44, 18 December 2019

OCA — Wed, 18 Dec 2019 09:44:11 GMT

←Older revision		Revision as of 09:44, 18 December 2019
Line 1:		Line 1:

	==Crystal structure of a natively-glycosylated B41 SOSIP.664 HIV-1 Envelope Trimer in complex with the broadly-neutralizing antibodies BG18 and 35O22==		==Crystal structure of a natively-glycosylated B41 SOSIP.664 HIV-1 Envelope Trimer in complex with the broadly-neutralizing antibodies BG18 and 35O22==
-	<StructureSection load='6ch9' size='340' side='right' caption='[[6ch9]], [[Resolution\|resolution]] 4.85Å' scene=''>	+	<StructureSection load='6ch9' size='340' side='right'caption='[[6ch9]], [[Resolution\|resolution]] 4.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6ch9]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CH9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CH9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6ch9]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CH9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CH9 FirstGlance]. <br>
Line 19:		Line 19:

	==See Also==		==See Also==
-	*[[Gp41\|Gp41]]	+	*[[Gp120 3D structures\|Gp120 3D structures]]
		+	*[[Gp41 3D Structures\|Gp41 3D Structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Barnes, C O]]		[[Category: Barnes, C O]]
	[[Category: Bjorkman, P J]]		[[Category: Bjorkman, P J]]

OCA at 08:24, 21 February 2019

OCA — Thu, 21 Feb 2019 08:24:40 GMT

←Older revision		Revision as of 08:24, 21 February 2019
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	<StructureSection load='6ch9' size='340' side='right' caption='[[6ch9]], [[Resolution\|resolution]] 4.85Å' scene=''>		<StructureSection load='6ch9' size='340' side='right' caption='[[6ch9]], [[Resolution\|resolution]] 4.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ch9]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CH9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CH9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ch9]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CH9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CH9 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=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">env ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])</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=6ch9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ch9 OCA], [http://pdbe.org/6ch9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ch9 RCSB], [http://www.ebi.ac.uk/pdbsum/6ch9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ch9 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=6ch9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ch9 OCA], [http://pdbe.org/6ch9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ch9 RCSB], [http://www.ebi.ac.uk/pdbsum/6ch9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ch9 ProSAT]</span></td></tr>
	</table>		</table>
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	</div>		</div>
	<div class="pdbe-citations 6ch9" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ch9" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Gp41\|Gp41]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Barnes, C O]]		[[Category: Barnes, C O]]
	[[Category: Bjorkman, P J]]		[[Category: Bjorkman, P J]]

OCA at 08:10, 2 May 2018

OCA — Wed, 02 May 2018 08:10:37 GMT

←Older revision		Revision as of 08:10, 2 May 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ch9 is ~~ON HOLD~~	+	==Crystal structure of a natively-glycosylated B41 SOSIP.664 HIV-1 Envelope Trimer in complex with the broadly-neutralizing antibodies BG18 and 35O22==
		+	<StructureSection load='6ch9' size='340' side='right' caption='[[6ch9]], [[Resolution\|resolution]] 4.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ch9]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CH9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CH9 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=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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ch9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ch9 OCA], [http://pdbe.org/6ch9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ch9 RCSB], [http://www.ebi.ac.uk/pdbsum/6ch9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ch9 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Broadly neutralizing antibodies (bNAbs) isolated from HIV-1-infected individuals inform HIV-1 vaccine design efforts. Developing bNAbs with increased efficacy requires understanding how antibodies interact with the native oligomannose and complex-type N-glycan shield that hides most protein epitopes on HIV-1 envelope (Env). Here we present crystal structures, including a 3.8-A X-ray free electron laser dataset, of natively glycosylated Env trimers complexed with BG18, the most potent V3/N332gp120 glycan-targeting bNAb reported to date. Our structures show conserved contacts mediated by common D gene-encoded residues with the N332gp120 glycan and the gp120 GDIR peptide motif, but a distinct Env-binding orientation relative to PGT121/10-1074 bNAbs. BG18's binding orientation provides additional contacts with N392gp120 and N386gp120 glycans near the V3-loop base and engages protein components of the V1-loop. The BG18-natively-glycosylated Env structures facilitate understanding of bNAb-glycan interactions critical for using V3/N332gp120 bNAbs therapeutically and targeting their epitope for immunogen design.

-	~~Authors:~~ Barnes, ~~C.O~~., ~~Bjorkman~~, P.J.	+	Structural characterization of a highly-potent V3-glycan broadly neutralizing antibody bound to natively-glycosylated HIV-1 envelope.,Barnes CO, Gristick HB, Freund NT, Escolano A, Lyubimov AY, Hartweger H, West AP Jr., Cohen AE, Nussenzweig MC, Bjorkman PJ Nat Commun. 2018 Mar 28;9(1):1251. doi: 10.1038/s41467-018-03632-y. PMID:29593217<ref>PMID:29593217</ref>

-	~~Description: Crystal structure of~~ a ~~natively-glycosylated B41 SOSIP~~.~~664 HIV~~-~~1 Envelope Trimer in complex with the broadly~~-~~neutralizing antibodies BG18 and 35O22~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Barnes, C.O]]	+	<div class="pdbe-citations 6ch9" style="background-color:#fffaf0;"></div>
-	[[Category: Bjorkman, P.J]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Barnes, C O]]
		+	[[Category: Bjorkman, P J]]
		+	[[Category: Broadly neutralizing antibody]]
		+	[[Category: Env glycoprotein]]
		+	[[Category: Immune system]]

OCA at 03:44, 8 March 2018

OCA — Thu, 08 Mar 2018 03:44:36 GMT

←Older revision		Revision as of 03:44, 8 March 2018
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	Authors: Barnes, C.O., Bjorkman, P.J.		Authors: Barnes, C.O., Bjorkman, P.J.

-	Description: Crystal ~~Structure~~ of a ~~Natively Glycosylated BG505~~ SOSIP.664 HIV-1 ~~Env~~ Trimer in ~~Complex~~ with the ~~Broadly Neutralizing Antibodies~~ BG18 and 35O22	+	Description: Crystal structure of a natively-glycosylated B41 SOSIP.664 HIV-1 Envelope Trimer in complex with the broadly-neutralizing antibodies BG18 and 35O22
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Barnes, C.O]]		[[Category: Barnes, C.O]]
	[[Category: Bjorkman, P.J]]		[[Category: Bjorkman, P.J]]

OCA: Protected "6ch9" [edit=sysop:move=sysop]

OCA — Wed, 28 Feb 2018 05:05:20 GMT

Protected "6ch9" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:05, 28 February 2018

OCA: New page: '''Unreleased structure''' The entry 6ch9 is ON HOLD Authors: Barnes, C.O., Bjorkman, P.J. Description: Crystal Structure of a Natively Glycosylated BG505 SOSIP.664 HIV-1 Env Trimer in...

OCA — Wed, 28 Feb 2018 05:05:19 GMT

New page: '''Unreleased structure''' The entry 6ch9 is ON HOLD Authors: Barnes, C.O., Bjorkman, P.J. Description: Crystal Structure of a Natively Glycosylated BG505 SOSIP.664 HIV-1 Env Trimer in...

New page

'''Unreleased structure'''

The entry 6ch9 is ON HOLD

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

Description: Crystal Structure of a Natively Glycosylated BG505 SOSIP.664 HIV-1 Env Trimer in Complex with the Broadly Neutralizing Antibodies BG18 and 35O22
[[Category: Unreleased Structures]]
[[Category: Barnes, C.O]]
[[Category: Bjorkman, P.J]]