6dcq - Revision history

OCA at 00:01, 11 April 2020

OCA — Sat, 11 Apr 2020 00:01:51 GMT

←Older revision		Revision as of 00:01, 11 April 2020
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	<SX load='6dcq' size='340' side='right' viewer='molstar' caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>		<SX load='6dcq' size='340' side='right' viewer='molstar' caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dcq]] is a 10 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=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6DCQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dcq]] is a 10 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=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6DCQ 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=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>	+	</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='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='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=6dcq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dcq OCA], [http://pdbe.org/6dcq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dcq RCSB], [http://www.ebi.ac.uk/pdbsum/6dcq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dcq 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=6dcq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dcq OCA], [http://pdbe.org/6dcq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dcq RCSB], [http://www.ebi.ac.uk/pdbsum/6dcq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dcq ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 20:53, 6 March 2020

OCA — Fri, 06 Mar 2020 20:53:13 GMT

←Older revision		Revision as of 20:53, 6 March 2020
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	==Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT151 Fab==		==Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT151 Fab==
-	<~~StructureSection~~ load='6dcq' size='340' side='right'caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<SX load='6dcq' size='340' side='right' viewer='molstar' caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6dcq]] is a 10 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=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DCQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[6dcq]] is a 10 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=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DCQ FirstGlance]. <br>
Line 20:		Line 20:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Human]]		[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 10:05, 18 December 2019

OCA — Wed, 18 Dec 2019 10:05:44 GMT

←Older revision		Revision as of 10:05, 18 December 2019
Line 1:		Line 1:

	==Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT151 Fab==		==Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT151 Fab==
-	<StructureSection load='6dcq' size='340' side='right' caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<StructureSection load='6dcq' size='340' side='right'caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6dcq]] is a 10 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=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DCQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[6dcq]] is a 10 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=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DCQ FirstGlance]. <br>
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Rantalainen, K]]		[[Category: Rantalainen, K]]
	[[Category: Env]]		[[Category: Env]]

OCA at 07:42, 4 July 2018

OCA — Wed, 04 Jul 2018 07:42:32 GMT

←Older revision		Revision as of 07:42, 4 July 2018
Line 3:		Line 3:
	<StructureSection load='6dcq' size='340' side='right' caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='6dcq' size='340' side='right' caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dcq]] is a 10 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DCQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dcq]] is a 10 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=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DCQ 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=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>		</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=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='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=6dcq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dcq OCA], [http://pdbe.org/6dcq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dcq RCSB], [http://www.ebi.ac.uk/pdbsum/6dcq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dcq 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=6dcq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dcq OCA], [http://pdbe.org/6dcq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dcq RCSB], [http://www.ebi.ac.uk/pdbsum/6dcq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dcq ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Broadly neutralizing antibodies (bnAbs) targeting the HIV envelope glycoprotein (Env) typically take years to develop. Longitudinal analyses of both neutralizing antibody lineages and viruses at serial time points during infection provide a basis for understanding the co-evolutionary contest between HIV and the humoral immune system. Here, we describe the structural characterization of an apex-targeting antibody lineage and autologous clade A viral Env from a donor in the Protocol C cohort. Comparison of Ab-Env complexes at early and late time points reveals that, within the antibody lineage, the CDRH3 loop rigidifies, the bnAb angle of approach steepens, and surface charges are mutated to accommodate glycan changes. Additionally, we observed differences in site-specific glycosylation between soluble and full-length Env constructs, which may be important for tuning optimal immunogenicity in soluble Env trimers. These studies therefore provide important guideposts for design of immunogens that prime and mature nAb responses to the Env V2-apex.
		+
		+	Co-evolution of HIV Envelope and Apex-Targeting Neutralizing Antibody Lineage Provides Benchmarks for Vaccine Design.,Rantalainen K, Berndsen ZT, Murrell S, Cao L, Omorodion O, Torres JL, Wu M, Umotoy J, Copps J, Poignard P, Landais E, Paulson JC, Wilson IA, Ward AB Cell Rep. 2018 Jun 12;23(11):3249-3261. doi: 10.1016/j.celrep.2018.05.046. PMID:29898396<ref>PMID:29898396</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6dcq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Rantalainen, K]]		[[Category: Rantalainen, K]]
	[[Category: Env]]		[[Category: Env]]

OCA at 05:38, 27 June 2018

OCA — Wed, 27 Jun 2018 05:38:32 GMT

←Older revision		Revision as of 05:38, 27 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6dcq is ON HOLD~~	+	==Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT151 Fab==
-		+	<StructureSection load='6dcq' size='340' side='right' caption='[[6dcq]], [[Resolution\|resolution]] 3.10Å' scene=''>
-	~~Authors: Rantalainen, K.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6dcq]] is a 10 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DCQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DCQ FirstGlance]. <br>
-	~~Description:~~ Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT151 Fab	+	</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=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>
-	[[~~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=6dcq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dcq OCA], [http://pdbe.org/6dcq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dcq RCSB], [http://www.ebi.ac.uk/pdbsum/6dcq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dcq ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
	[[Category: Rantalainen, K]]		[[Category: Rantalainen, K]]
		+	[[Category: Env]]
		+	[[Category: Glycoprotein]]
		+	[[Category: Hiv-1]]
		+	[[Category: Viral protein]]

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

OCA — Wed, 16 May 2018 04:07:17 GMT

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

←Older revision

Revision as of 04:07, 16 May 2018

OCA: New page: '''Unreleased structure''' The entry 6dcq is ON HOLD Authors: Rantalainen, K. Description: Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT...

OCA — Wed, 16 May 2018 04:07:16 GMT

New page: '''Unreleased structure''' The entry 6dcq is ON HOLD Authors: Rantalainen, K. Description: Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT...

New page

'''Unreleased structure'''

The entry 6dcq is ON HOLD

Authors: Rantalainen, K.

Description: Ectodomain of full length, wild type HIV-1 glycoprotein clone PC64M18C043 in complex with PGT151 Fab
[[Category: Unreleased Structures]]
[[Category: Rantalainen, K]]