6nij - Revision history

OCA at 06:35, 7 April 2023

OCA — Fri, 07 Apr 2023 06:35:40 GMT

←Older revision		Revision as of 06:35, 7 April 2023
Line 3:		Line 3:
	<SX load='6nij' size='340' side='right' viewer='molstar' caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>		<SX load='6nij' size='340' side='right' viewer='molstar' caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6NIJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NIJ FirstGlance]. <br>
	</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=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=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~~://proteopedia.org/fgij/fg.htm?mol=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [~~http~~://pdbe.org/6nij PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6nij PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij 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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [https://pdbe.org/6nij PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [https://www.ebi.ac.uk/pdbsum/6nij PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 16:
	</div>		</div>
	<div class="pdbe-citations 6nij" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6nij" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: Human]]	+	[[Category: Homo sapiens]]
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cottrell~~, C A]]~~	+	[[Category: Cottrell CA]]
-	~~[[Category: Pena, A Torrents de la~~]]	+	[[Category: Rantalainen K]]
-	[[Category: Rantalainen, K]]	+	[[Category: Torrents de la Pena A]]
-	[[Category: ~~Torres, J L]]~~	+	[[Category: Torres JL]]
-	~~[[Category: Ward,~~ A B]]	+	[[Category: Ward AB]]
-	[[Category: ~~Antibody~~]]	+
-	[[Category: ~~Glycoprotein]]~~	+
-	~~[[Category: Hiv-1]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 03:23, 11 April 2020

OCA — Sat, 11 Apr 2020 03:23:24 GMT

←Older revision		Revision as of 03:23, 11 April 2020
Line 3:		Line 3:
	<SX load='6nij' size='340' side='right' viewer='molstar' caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>		<SX load='6nij' size='340' side='right' viewer='molstar' caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6NIJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6NIJ 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=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=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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [http://pdbe.org/6nij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [http://www.ebi.ac.uk/pdbsum/6nij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij 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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [http://pdbe.org/6nij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [http://www.ebi.ac.uk/pdbsum/6nij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:51, 6 March 2020

OCA — Fri, 06 Mar 2020 22:51:35 GMT

←Older revision		Revision as of 22:51, 6 March 2020
Line 1:		Line 1:

	==PGT145 Fab in complex with full length AMC011 HIV-1 Env==		==PGT145 Fab in complex with full length AMC011 HIV-1 Env==
-	<~~StructureSection~~ load='6nij' size='340' side='right'caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>	+	<SX load='6nij' size='340' side='right' viewer='molstar' caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NIJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NIJ FirstGlance]. <br>
Line 19:		Line 19:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Human]]		[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 11:34, 18 December 2019

OCA — Wed, 18 Dec 2019 11:34:06 GMT

←Older revision		Revision as of 11:34, 18 December 2019
Line 3:		Line 3:
	<StructureSection load='6nij' size='340' side='right'caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>		<StructureSection load='6nij' size='340' side='right'caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NIJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NIJ 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=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=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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [http://pdbe.org/6nij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [http://www.ebi.ac.uk/pdbsum/6nij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij 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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [http://pdbe.org/6nij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [http://www.ebi.ac.uk/pdbsum/6nij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij ProSAT]</span></td></tr>

OCA at 07:25, 16 October 2019

OCA — Wed, 16 Oct 2019 07:25:28 GMT

←Older revision		Revision as of 07:25, 16 October 2019
Line 3:		Line 3:
	<StructureSection load='6nij' size='340' side='right'caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>		<StructureSection load='6nij' size='340' side='right'caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6nij]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NIJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6nij]] is a 8 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=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NIJ 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=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=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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [http://pdbe.org/6nij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [http://www.ebi.ac.uk/pdbsum/6nij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij 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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [http://pdbe.org/6nij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [http://www.ebi.ac.uk/pdbsum/6nij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij ProSAT]</span></td></tr>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Cottrell, C A]]		[[Category: Cottrell, C A]]

OCA at 06:22, 31 July 2019

OCA — Wed, 31 Jul 2019 06:22:37 GMT

←Older revision		Revision as of 06:22, 31 July 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6nij is ~~ON HOLD until Paper~~ Publication	+	==PGT145 Fab in complex with full length AMC011 HIV-1 Env==
		+	<StructureSection load='6nij' size='340' side='right'caption='[[6nij]], [[Resolution\|resolution]] 5.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6nij]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NIJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NIJ 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=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=6nij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nij OCA], [http://pdbe.org/6nij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nij RCSB], [http://www.ebi.ac.uk/pdbsum/6nij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nij ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The HIV-1 envelope glycoprotein (Env) trimer is located on the surface of the virus and is the target of broadly neutralizing antibodies (bNAbs). Recombinant native-like soluble Env trimer mimetics, such as SOSIP trimers, have taken a central role in HIV-1 vaccine research aimed at inducing bNAbs. We therefore performed a direct and thorough comparison of a full-length unmodified Env trimer containing the transmembrane domain and the cytoplasmic tail, with the sequence matched soluble SOSIP trimer, both based on an early Env sequence (AMC011) from an HIV+ individual that developed bNAbs. The structures of the full-length AMC011 trimer bound to either bNAb PGT145 or PGT151 were very similar to the structures of SOSIP trimers. Antigenically, the full-length and SOSIP trimers were comparable, but in contrast to the full-length trimer, the SOSIP trimer did not bind at all to non-neutralizing antibodies, most likely as a consequence of the intrinsic stabilization of the SOSIP trimer. Furthermore, the glycan composition of full-length and SOSIP trimers was similar overall, but the SOSIP trimer possessed slightly less complex and less extensively processed glycans, which may relate to the intrinsic stabilization as well as the absence of the membrane tether. These data provide insights into how to best use and improve membrane-associated full-length and soluble SOSIP HIV-1 Env trimers as immunogens.

-	~~Authors: Cottrell, C.A~~., Torrents de la Pena, A., Rantalainen, K., Torres, ~~J.L.~~, ~~Ward~~, A.B.	+	Similarities and differences between native HIV-1 envelope glycoprotein trimers and stabilized soluble trimer mimetics.,Torrents de la Pena A, Rantalainen K, Cottrell CA, Allen JD, van Gils MJ, Torres JL, Crispin M, Sanders RW, Ward AB PLoS Pathog. 2019 Jul 15;15(7):e1007920. doi: 10.1371/journal.ppat.1007920., eCollection 2019 Jul. PMID:31306470<ref>PMID:31306470</ref>

-	~~Description: PGT145 Fab in complex with full length AMC011 HIV~~-~~1 Env~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Ward~~, A.B]]	+	<div class="pdbe-citations 6nij" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Cottrell~~, C.A]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Cottrell, C A]]
		+	[[Category: Pena, A Torrents de la]]
	[[Category: Rantalainen, K]]		[[Category: Rantalainen, K]]
-	[[Category: ~~Torrents De La Pena~~, A]]	+	[[Category: Torres, J L]]
-	[[Category: ~~Torres~~, ~~J.L~~]]	+	[[Category: Ward, A B]]
		+	[[Category: Antibody]]
		+	[[Category: Glycoprotein]]
		+	[[Category: Hiv-1]]
		+	[[Category: Immune system]]

OCA at 04:04, 10 July 2019

OCA — Wed, 10 Jul 2019 04:04:29 GMT

←Older revision		Revision as of 04:04, 10 July 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Cottrell, C.A., Torrents de la Pena, A., Rantalainen, K., Torres, J.L., Ward, A.B.		Authors: Cottrell, C.A., Torrents de la Pena, A., Rantalainen, K., Torres, J.L., Ward, A.B.

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

OCA — Wed, 09 Jan 2019 05:03:25 GMT

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

←Older revision

Revision as of 05:03, 9 January 2019

OCA: New page: '''Unreleased structure''' The entry 6nij is ON HOLD Authors: Cottrell, C.A., Torrents de la Pena, A., Rantalainen, K., Torres, J.L., Ward, A.B. Description: PGT145 Fab in complex with...

OCA — Wed, 09 Jan 2019 05:03:24 GMT

New page: '''Unreleased structure''' The entry 6nij is ON HOLD Authors: Cottrell, C.A., Torrents de la Pena, A., Rantalainen, K., Torres, J.L., Ward, A.B. Description: PGT145 Fab in complex with...

New page

'''Unreleased structure'''

The entry 6nij is ON HOLD

Authors: Cottrell, C.A., Torrents de la Pena, A., Rantalainen, K., Torres, J.L., Ward, A.B.

Description: PGT145 Fab in complex with full length AMC011 HIV-1 Env
[[Category: Unreleased Structures]]
[[Category: Ward, A.B]]
[[Category: Cottrell, C.A]]
[[Category: Rantalainen, K]]
[[Category: Torrents De La Pena, A]]
[[Category: Torres, J.L]]