OCA at 06:36, 25 January 2023

2023-01-25T06:36:49Z

←Older revision		Revision as of 06:36, 25 January 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8e55 is ~~ON HOLD until Paper~~ Publication	+	==Design of Diverse Asymmetric Pockets in de novo Homo-oligomeric Proteins==
		+	<StructureSection load='8e55' size='340' side='right'caption='[[8e55]], [[Resolution\|resolution]] 3.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8e55]] 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=8E55 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8E55 FirstGlance]. <br>
		+	</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=8e55 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8e55 OCA], [https://pdbe.org/8e55 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8e55 RCSB], [https://www.ebi.ac.uk/pdbsum/8e55 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8e55 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A challenge for design of protein-small-molecule recognition is that incorporation of cavities with size, shape, and composition suitable for specific recognition can considerably destabilize protein monomers. This challenge can be overcome through binding pockets formed at homo-oligomeric interfaces between folded monomers. Interfaces surrounding the central homo-oligomer symmetry axes necessarily have the same symmetry and so may not be well suited to binding asymmetric molecules. To enable general recognition of arbitrary asymmetric substrates and small molecules, we developed an approach to designing asymmetric interfaces at off-axis sites on homo-oligomers, analogous to those found in native homo-oligomeric proteins such as glutamine synthetase. We symmetrically dock curved helical repeat proteins such that they form pockets at the asymmetric interface of the oligomer with sizes ranging from several angstroms, appropriate for binding a single ion, to up to more than 20 A across. Of the 133 proteins tested, 84 had soluble expression in E. coli, 47 had correct oligomeric states in solution, 35 had small-angle X-ray scattering (SAXS) data largely consistent with design models, and 8 had negative-stain electron microscopy (nsEM) 2D class averages showing the structures coming together as designed. Both an X-ray crystal structure and a cryogenic electron microscopy (cryoEM) structure are close to the computational design models. The nature of these proteins as homo-oligomers allows them to be readily built into higher-order structures such as nanocages, and the asymmetric pockets of these structures open rich possibilities for small-molecule binder design free from the constraints associated with monomer destabilization.

-	~~Authors~~:	+	Design of Diverse Asymmetric Pockets in De Novo Homo-oligomeric Proteins.,Gerben SR, Borst AJ, Hicks DR, Moczygemba I, Feldman D, Coventry B, Yang W, Bera AK, Miranda M, Kang A, Nguyen H, Baker D Biochemistry. 2023 Jan 17;62(2):358-368. doi: 10.1021/acs.biochem.2c00497. Epub , 2023 Jan 10. PMID:36627259<ref>PMID:36627259</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8e55" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Synthetic construct]]
		+	[[Category: Baker D]]
		+	[[Category: Borst AJ]]
		+	[[Category: Gerben S]]

OCA at 04:40, 28 September 2022

2022-09-28T04:40:01Z

←Older revision		Revision as of 04:40, 28 September 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8e55 is ON HOLD	+	The entry 8e55 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "8e55" [edit=sysop:move=sysop]

2022-08-31T05:34:36Z

Protected "8e55" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:34, 31 August 2022

OCA: New page: '''Unreleased structure''' The entry 8e55 is ON HOLD Authors: Description: Category: Unreleased Structures

2022-08-31T05:34:35Z

New page: '''Unreleased structure''' The entry 8e55 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8e55 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

8e55 - Revision history

OCA at 06:36, 25 January 2023

OCA at 04:40, 28 September 2022

OCA: Protected "8e55" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8e55 is ON HOLD Authors: Description: Category: Unreleased Structures