5kng - Revision history

OCA at 10:04, 27 September 2023

2023-09-27T10:04:09Z

←Older revision		Revision as of 10:04, 27 September 2023
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	<StructureSection load='5kng' size='340' side='right'caption='[[5kng]], [[Resolution\|resolution]] 1.35Å' scene=''>		<StructureSection load='5kng' size='340' side='right'caption='[[5kng]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kng]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Synthetic_construct_sequences~~ Synthetic construct ~~sequences~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KNG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5KNG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kng]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KNG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KNG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 1.35Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5knh\|5knh]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=5kng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kng OCA], [~~http~~://pdbe.org/5kng PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kng RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kng PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kng 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=5kng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kng OCA], [https://pdbe.org/5kng PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kng RCSB], [https://www.ebi.ac.uk/pdbsum/5kng PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kng ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Synthetic construct ~~sequences~~]]	+	[[Category: Synthetic construct]]
-	[[Category: Gilliland, G]]	+	[[Category: Gilliland G]]
-	[[Category: Malia, T]]	+	[[Category: Malia T]]
-	[[Category: Obmolova, G]]	+	[[Category: Obmolova G]]
-	[[Category: Teplyakov, A]]	+	[[Category: Teplyakov A]]
-	~~[[Category: Alternative scaffold]]~~	+
-	~~[[Category: De novo protein~~]]	+

OCA at 06:28, 5 August 2020

2020-08-05T06:28:47Z

←Older revision		Revision as of 06:28, 5 August 2020
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	==CRYSTAL STRUCTURE OF ANTI-IL-13 DARPIN 6G9==		==CRYSTAL STRUCTURE OF ANTI-IL-13 DARPIN 6G9==
-	<StructureSection load='5kng' size='340' side='right' caption='[[5kng]], [[Resolution\|resolution]] 1.35Å' scene=''>	+	<StructureSection load='5kng' size='340' side='right'caption='[[5kng]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kng]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KNG OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KNG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kng]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KNG OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5KNG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5knh\|5knh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5knh\|5knh]]</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=5kng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kng OCA], [http://pdbe.org/5kng PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kng RCSB], [http://www.ebi.ac.uk/pdbsum/5kng PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kng 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=5kng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kng OCA], [http://pdbe.org/5kng PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kng RCSB], [http://www.ebi.ac.uk/pdbsum/5kng PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kng 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: Large Structures]]
		+	[[Category: Synthetic construct sequences]]
	[[Category: Gilliland, G]]		[[Category: Gilliland, G]]
	[[Category: Malia, T]]		[[Category: Malia, T]]

OCA at 19:08, 15 December 2016

2016-12-15T19:08:34Z

←Older revision		Revision as of 19:08, 15 December 2016
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-	'''Unreleased structure'''

-	~~The entry~~ 5kng is ~~ON HOLD until Paper~~ Publication	+	==CRYSTAL STRUCTURE OF ANTI-IL-13 DARPIN 6G9==
		+	<StructureSection load='5kng' size='340' side='right' caption='[[5kng]], [[Resolution\|resolution]] 1.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kng]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KNG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KNG FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5knh\|5knh]]</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=5kng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kng OCA], [http://pdbe.org/5kng PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kng RCSB], [http://www.ebi.ac.uk/pdbsum/5kng PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kng ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Designed ankyrin repeat proteins (DARPin(R)) are artificial non-immunoglobulin binding proteins with potential applications as therapeutic molecules. DARPin 6G9 binds interleukin-13 with high affinity and blocks the signaling pathway and as such is promising for the treatment of asthma and other atopic diseases. The crystal structures of DARPin 6G9 in the unbound form and in complex with IL-13 were determined at high resolution. The DARPin competes for the same epitope as the IL-13 receptor chain 13Ralpha1 but does not interfere with the binding of the other receptor chain, IL-4Ralpha. Analysis of multiple copies of the DARPin molecule in the crystal indicates the conformational instability in the N-terminal cap that was predicted from molecular dynamics simulations. Comparison of the DARPin structures in the free state and in complex with IL-13 reveals a concerted movement of the ankyrin repeats upon binding resulted in the opening of the binding site. The induced-fit mode of binding employed by DARPin 6G9 is very unusual for DARPins since they were designed as particularly stable and rigid molecules. This finding shows that DARPins can operate by various binding mechanisms and suggests that some flexibility in the scaffold may be an advantage.

-	~~Authors:~~ Teplyakov, A., Malia~~, T.~~, Obmolova, G., Gilliland~~, G~~.	+	Conformational flexibility of an anti-IL-13 DARPindagger.,Teplyakov A, Malia TJ, Obmolova G, Jacobs SA, O'Neil KT, Gilliland GL Protein Eng Des Sel. 2016 Nov 23. PMID:27881684<ref>PMID:27881684</ref>

-	~~Description: CRYSTAL STRUCTURE OF ANTI~~-IL-~~13 DARPIN 6G9~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: Malia, T]]~~	+	<div class="pdbe-citations 5kng" style="background-color:#fffaf0;"></div>
-	~~[[Category: Teplyakov, A]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Gilliland, G]]		[[Category: Gilliland, G]]
		+	[[Category: Malia, T]]
	[[Category: Obmolova, G]]		[[Category: Obmolova, G]]
		+	[[Category: Teplyakov, A]]
		+	[[Category: Alternative scaffold]]
		+	[[Category: De novo protein]]

OCA at 13:09, 27 July 2016

2016-07-27T13:09:38Z

←Older revision		Revision as of 13:09, 27 July 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5kng is ON HOLD	+	The entry 5kng is ON HOLD until Paper Publication

	Authors: Teplyakov, A., Malia, T., Obmolova, G., Gilliland, G.		Authors: Teplyakov, A., Malia, T., Obmolova, G., Gilliland, G.

OCA: Protected "5kng" [edit=sysop:move=sysop]

2016-07-13T00:36:40Z

Protected "5kng" [edit=sysop:move=sysop]

←Older revision

Revision as of 00:36, 13 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kng is ON HOLD Authors: Teplyakov, A., Malia, T., Obmolova, G., Gilliland, G. Description: CRYSTAL STRUCTURE OF ANTI-IL-13 DARPIN 6G9 [[Category: ...

2016-07-13T00:36:38Z

New page: '''Unreleased structure''' The entry 5kng is ON HOLD Authors: Teplyakov, A., Malia, T., Obmolova, G., Gilliland, G. Description: CRYSTAL STRUCTURE OF ANTI-IL-13 DARPIN 6G9 [[Category: ...

New page

'''Unreleased structure'''

The entry 5kng is ON HOLD

Authors: Teplyakov, A., Malia, T., Obmolova, G., Gilliland, G.

Description: CRYSTAL STRUCTURE OF ANTI-IL-13 DARPIN 6G9
[[Category: Unreleased Structures]]
[[Category: Malia, T]]
[[Category: Teplyakov, A]]
[[Category: Gilliland, G]]
[[Category: Obmolova, G]]