6s9n - Revision history

OCA at 07:16, 4 March 2020

OCA — Wed, 04 Mar 2020 07:16:51 GMT

←Older revision		Revision as of 07:16, 4 March 2020
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	<StructureSection load='6s9n' size='340' side='right'caption='[[6s9n]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='6s9n' size='340' side='right'caption='[[6s9n]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6s9n]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6S9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6S9N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6s9n]] is a 6 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=6S9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6S9N FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6s9l\|6s9l]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6s9l\|6s9l]]</td></tr>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Synthetic construct sequences]]
	[[Category: Ernst, P]]		[[Category: Ernst, P]]
	[[Category: Pluckthun, A]]		[[Category: Pluckthun, A]]

OCA at 06:33, 19 February 2020

OCA — Wed, 19 Feb 2020 06:33:42 GMT

←Older revision		Revision as of 06:33, 19 February 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6s9n is ~~ON HOLD until Paper~~ Publication	+	==Designed Armadillo Repeat protein Lock2 fused to target peptide KRKRKAKLSF==
		+	<StructureSection load='6s9n' size='340' side='right'caption='[[6s9n]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6s9n]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6S9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6S9N FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6s9l\|6s9l]]</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=6s9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6s9n OCA], [http://pdbe.org/6s9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6s9n RCSB], [http://www.ebi.ac.uk/pdbsum/6s9n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6s9n ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Peptides play an important role in intermolecular interactions and are frequent analytes in diagnostic assays, also as unstructured, linear epitopes in whole proteins. Yet, due to the many different sequence possibilities even for short peptides, classical selection of binding proteins from a library, one at a time, is not scalable to proteomes. However, moving away from selection to a rational assembly of preselected modules binding to predefined linear epitopes would split the problem into smaller parts. These modules could then be reassembled in any desired order to bind to, in principle, arbitrary sequences, thereby circumventing any new rounds of selection. Designed Armadillo repeat proteins (dArmRPs) are modular, and they do bind elongated peptides in a modular way. Their consensus sequence carries pockets that prefer arginine and lysine. In our quest to select pockets for all amino acid side chains, we had discovered that repetitive sequences can lead to register shifts and peptide flipping during selections from libraries, hindering the selection of new binding specificities. To solve this problem, we now created an orthogonal binding specificity by a combination of grafting from beta-catenin, computational design and mutual optimization of the pocket and the bound peptide. We have confirmed the design and the desired interactions by X-ray structure determination. Furthermore, we could confirm the absence of sliding in solution by a single-molecule Forster resonance energy transfer. The new pocket could be moved from the N-terminus of the protein to the middle, retaining its properties, further underlining the modularity of the system.

-	~~Authors: Ernst~~, P., Zosel, F., Reichen, C., ~~Schuler~~, B., Pluckthun, A.	+	Structure-Guided Design of a Peptide Lock for Modular Peptide Binders.,Ernst P, Zosel F, Reichen C, Nettels D, Schuler B, Pluckthun A ACS Chem Biol. 2020 Feb 13. doi: 10.1021/acschembio.9b00928. PMID:31985201<ref>PMID:31985201</ref>

-	~~Description~~: ~~Designed Armadillo Repeat protein Lock2 fused to target peptide KRKRKAKLSF~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6s9n" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Ernst, P]]
	[[Category: Pluckthun, A]]		[[Category: Pluckthun, A]]
	[[Category: Reichen, C]]		[[Category: Reichen, C]]
	[[Category: Schuler, B]]		[[Category: Schuler, B]]
	[[Category: Zosel, F]]		[[Category: Zosel, F]]
-	[[Category: ~~Ernst, P~~]]	+	[[Category: De novo protein]]
		+	[[Category: Designed armadillo repeat protein]]
		+	[[Category: Peptide binder]]
		+	[[Category: Repeat protein]]

OCA: Protected "6s9n" [edit=sysop:move=sysop]

OCA — Wed, 24 Jul 2019 04:41:47 GMT

Protected "6s9n" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:41, 24 July 2019

OCA: New page: '''Unreleased structure''' The entry 6s9n is ON HOLD until Paper Publication Authors: Ernst, P., Zosel, F., Reichen, C., Schuler, B., Pluckthun, A. Description: Designed Armadillo Repe...

OCA — Wed, 24 Jul 2019 04:41:45 GMT

New page: '''Unreleased structure''' The entry 6s9n is ON HOLD until Paper Publication Authors: Ernst, P., Zosel, F., Reichen, C., Schuler, B., Pluckthun, A. Description: Designed Armadillo Repe...

New page

'''Unreleased structure'''

The entry 6s9n is ON HOLD until Paper Publication

Authors: Ernst, P., Zosel, F., Reichen, C., Schuler, B., Pluckthun, A.

Description: Designed Armadillo Repeat protein Lock2 fused to target peptide KRKRKAKLSF
[[Category: Unreleased Structures]]
[[Category: Pluckthun, A]]
[[Category: Reichen, C]]
[[Category: Schuler, B]]
[[Category: Zosel, F]]
[[Category: Ernst, P]]