4k3g - Revision history

OCA at 11:38, 30 November 2022

OCA — Wed, 30 Nov 2022 11:38:28 GMT

←Older revision		Revision as of 11:38, 30 November 2022
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	<StructureSection load='4k3g' size='340' side='right'caption='[[4k3g]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4k3g' size='340' side='right'caption='[[4k3g]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4k3g]] is a 2 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=4K3G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4K3G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4k3g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K3G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K3G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k3h\|4k3h]]~~</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=4k3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k3g OCA], [https://pdbe.org/4k3g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k3g RCSB], [https://www.ebi.ac.uk/pdbsum/4k3g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k3g 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=4k3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k3g OCA], [~~http~~://pdbe.org/4k3g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4k3g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4k3g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4k3g 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: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Stanfield~~, R L~~]]	+	[[Category: Stanfield RL]]
-	[[Category: Szent-Gyorgyi, C]]	+	[[Category: Szent-Gyorgyi C]]
-	[[Category: Wilson~~, I A]]~~	+	[[Category: Wilson IA]]
-	~~[[Category: Fluorescence]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Immunoglobulin fold]]~~	+
-	~~[[Category: Malachite green]]~~	+
-	~~[[Category: O-mannosylation]]~~	+
-	~~[[Category: Thr27~~]]	+

OCA at 09:20, 3 April 2019

OCA — Wed, 03 Apr 2019 09:20:19 GMT

←Older revision		Revision as of 09:20, 3 April 2019
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	==Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein==		==Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein==
-	<StructureSection load='4k3g' size='340' side='right' caption='[[4k3g]], [[Resolution\|resolution]] 1.93Å' scene=''>	+	<StructureSection load='4k3g' size='340' side='right'caption='[[4k3g]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4k3g]] is a 2 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=4K3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K3G FirstGlance]. <br>		<table><tr><td colspan='2'>[[4k3g]] is a 2 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=4K3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K3G FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Stanfield, R L]]		[[Category: Stanfield, R L]]
	[[Category: Szent-Gyorgyi, C]]		[[Category: Szent-Gyorgyi, C]]

OCA at 21:44, 5 August 2016

OCA — Fri, 05 Aug 2016 21:44:45 GMT

←Older revision		Revision as of 21:44, 5 August 2016
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		+
	==Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein==		==Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein==
	<StructureSection load='4k3g' size='340' side='right' caption='[[4k3g]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4k3g' size='340' side='right' caption='[[4k3g]], [[Resolution\|resolution]] 1.93Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k3h\|4k3h]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k3h\|4k3h]]</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=4k3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k3g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4k3g RCSB], [http://www.ebi.ac.uk/pdbsum/4k3g PDBsum]</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=4k3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k3g OCA], [http://pdbe.org/4k3g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4k3g RCSB], [http://www.ebi.ac.uk/pdbsum/4k3g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4k3g ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4k3g" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:52, 21 December 2014

OCA — Sun, 21 Dec 2014 14:52:35 GMT

←Older revision		Revision as of 14:52, 21 December 2014
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-	~~{{STRUCTURE_4k3g\| PDB=4k3g \| SCENE= }}~~	+	==Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein==
-	===Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein===	+	<StructureSection load='4k3g' size='340' side='right' caption='[[4k3g]], [[Resolution\|resolution]] 1.93Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23978698}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4k3g]] is a 2 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=4K3G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K3G FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k3h\|4k3h]]</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=4k3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k3g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4k3g RCSB], [http://www.ebi.ac.uk/pdbsum/4k3g PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We report that a symmetric small-molecule ligand mediates the assembly of antibody light chain variable domains (VLs) into a correspondent symmetric ternary complex with novel interfaces. The L5* fluorogen activating protein is a VL domain that binds malachite green (MG) dye to activate intense fluorescence. Crystallography of liganded L5* reveals a 2:1 protein:ligand complex with inclusive C2 symmetry, where MG is almost entirely encapsulated between an antiparallel arrangement of the two VL domains. Unliganded L5* VL domains crystallize as a similar antiparallel VL/VL homodimer. The complementarity-determining regions are spatially oriented to form novel VL/VL and VL/ligand interfaces that tightly constrain a propeller conformer of MG. Binding equilibrium analysis suggests highly cooperative assembly to form a very stable VL/MG/VL complex, such that MG behaves as a strong chemical inducer of dimerization. Fusion of two VL domains into a single protein tightens MG binding over 1000-fold to low picomolar affinity without altering the large binding enthalpy, suggesting that bonding interactions with ligand and restriction of domain movements make independent contributions to binding. Fluorescence activation of a symmetrical fluorogen provides a selection mechanism for the isolation and directed evolution of ternary complexes where unnatural symmetric binding interfaces are favored over canonical antibody interfaces. As exemplified by L5*, these self-reporting complexes may be useful as modulators of protein association or as high-affinity protein tags and capture reagents.

-	~~==About this Structure==~~	+	Malachite Green Mediates Homodimerization of Antibody V Domains to Form a Fluorescent Ternary Complex with Singular Symmetric Interfaces.,Szent-Gyorgyi C, Stanfield RL, Andreko S, Dempsey A, Ahmed M, Capek S, Waggoner AS, Wilson IA, Bruchez MP J Mol Biol. 2013 Aug 23. pii: S0022-2836(13)00534-2. doi:, 10.1016/j.jmb.2013.08.014. PMID:23978698<ref>PMID:23978698</ref>
-	~~[[4k3g]] is~~ a ~~2 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=4K3G OCA]~~.	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023978698</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Human]]		[[Category: Human]]
-	[[Category: Stanfield, R L.]]	+	[[Category: Stanfield, R L]]
-	[[Category: Szent-Gyorgyi, C.]]	+	[[Category: Szent-Gyorgyi, C]]
-	[[Category: Wilson, I A.]]	+	[[Category: Wilson, I A]]
	[[Category: Fluorescence]]		[[Category: Fluorescence]]
	[[Category: Immune system]]		[[Category: Immune system]]

OCA at 06:30, 13 November 2013

OCA — Wed, 13 Nov 2013 06:30:31 GMT

←Older revision		Revision as of 06:30, 13 November 2013
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	==About this Structure==		==About this Structure==
-	[[4k3g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K3G OCA].	+	[[4k3g]] is a 2 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=4K3G OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:023978698</ref><references group="xtra"/><references/>		<ref group="xtra">PMID:023978698</ref><references group="xtra"/><references/>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Stanfield, R L.]]		[[Category: Stanfield, R L.]]
	[[Category: Szent-Gyorgyi, C.]]		[[Category: Szent-Gyorgyi, C.]]

OCA at 06:26, 10 October 2013

OCA — Thu, 10 Oct 2013 06:26:53 GMT

←Older revision		Revision as of 06:26, 10 October 2013
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-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4k3g\| PDB=4k3g \| SCENE= }}
		+	===Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein===
		+	{{ABSTRACT_PUBMED_23978698}}

-	~~The entry~~ 4k3g is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4k3g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K3G OCA].

-	~~Authors~~: Stanfield, R.L., Szent-Gyorgyi, C., Wilson, I.A.	+	==Reference==
-		+	<ref group="xtra">PMID:023978698</ref><references group="xtra"/><references/>
-	~~Description~~: Immunoglobulin ~~lambda variable domain L5(L89S) fluorogen activating protein~~	+	[[Category: Homo sapiens]]
		+	[[Category: Stanfield, R L.]]
		+	[[Category: Szent-Gyorgyi, C.]]
		+	[[Category: Wilson, I A.]]
		+	[[Category: Fluorescence]]
		+	[[Category: Immune system]]
		+	[[Category: Immunoglobulin fold]]
		+	[[Category: Malachite green]]
		+	[[Category: O-mannosylation]]
		+	[[Category: Thr27]]

OCA: Protected "4k3g" [edit=sysop:move=sysop]

OCA — Wed, 17 Apr 2013 20:07:49 GMT

Protected "4k3g" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:07, 17 April 2013

OCA: New page: '''Unreleased structure''' The entry 4k3g is ON HOLD until Paper Publication Authors: Stanfield, R.L., Szent-Gyorgyi, C., Wilson, I.A. Description: Immunoglobulin lambda variable domai...

OCA — Wed, 17 Apr 2013 20:07:48 GMT

New page: '''Unreleased structure''' The entry 4k3g is ON HOLD until Paper Publication Authors: Stanfield, R.L., Szent-Gyorgyi, C., Wilson, I.A. Description: Immunoglobulin lambda variable domai...

New page

'''Unreleased structure'''

The entry 4k3g is ON HOLD until Paper Publication

Authors: Stanfield, R.L., Szent-Gyorgyi, C., Wilson, I.A.

Description: Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein