7nff - Revision history

OCA at 07:49, 1 May 2024

2024-05-01T07:49:49Z

←Older revision		Revision as of 07:49, 1 May 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7nff]] is a 2 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=7NFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NFF FirstGlance]. <br>		<table><tr><td colspan='2'>[[7nff]] is a 2 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=7NFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NFF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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]] 1.55Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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=7nff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nff OCA], [https://pdbe.org/7nff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nff RCSB], [https://www.ebi.ac.uk/pdbsum/7nff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nff 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=7nff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nff OCA], [https://pdbe.org/7nff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nff RCSB], [https://www.ebi.ac.uk/pdbsum/7nff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nff ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Differential sensing attempts to mimic the mammalian senses of smell and taste to identify analytes and complex mixtures. In place of hundreds of complex, membrane-bound G-protein coupled receptors, differential sensors employ arrays of small molecules. Here we show that arrays of computationally designed de novo peptides provide alternative synthetic receptors for differential sensing. We use self-assembling alpha-helical barrels (alphaHBs) with central channels that can be altered predictably to vary their sizes, shapes and chemistries. The channels accommodate environment-sensitive dyes that fluoresce upon binding. Challenging arrays of dye-loaded barrels with analytes causes differential fluorophore displacement. The resulting fluorimetric fingerprints are used to train machine-learning models that relate the patterns to the analytes. We show that this system discriminates between a range of biomolecules, drink, and diagnostically relevant biological samples. As alphaHBs are robust and chemically diverse, the system has potential to sense many analytes in various settings.
-
-	Differential sensing with arrays of de novo designed peptide assemblies.,Dawson WM, Shelley KL, Fletcher JM, Scott DA, Lombardi L, Rhys GG, LaGambina TJ, Obst U, Burton AJ, Cross JA, Davies G, Martin FJO, Wiseman FJ, Brady RL, Tew D, Wood CW, Woolfson DN Nat Commun. 2023 Jan 24;14(1):383. doi: 10.1038/s41467-023-36024-y. PMID:36693847<ref>PMID:36693847</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 7nff" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:54, 8 February 2023

2023-02-08T06:54:46Z

←Older revision		Revision as of 06:54, 8 February 2023
Line 1:		Line 1:

	==An octameric barrel state of a de novo coiled-coil assembly: CC-Type2-(LaId)4-I24A.==		==An octameric barrel state of a de novo coiled-coil assembly: CC-Type2-(LaId)4-I24A.==
-	<StructureSection load='7nff' size='340' side='right'caption='[[7nff]]' scene=''>	+	<StructureSection load='7nff' size='340' side='right'caption='[[7nff]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NFF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7nff]] is a 2 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=7NFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NFF 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=7nff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nff OCA], [https://pdbe.org/7nff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nff RCSB], [https://www.ebi.ac.uk/pdbsum/7nff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nff ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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=7nff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nff OCA], [https://pdbe.org/7nff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nff RCSB], [https://www.ebi.ac.uk/pdbsum/7nff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nff ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Differential sensing attempts to mimic the mammalian senses of smell and taste to identify analytes and complex mixtures. In place of hundreds of complex, membrane-bound G-protein coupled receptors, differential sensors employ arrays of small molecules. Here we show that arrays of computationally designed de novo peptides provide alternative synthetic receptors for differential sensing. We use self-assembling alpha-helical barrels (alphaHBs) with central channels that can be altered predictably to vary their sizes, shapes and chemistries. The channels accommodate environment-sensitive dyes that fluoresce upon binding. Challenging arrays of dye-loaded barrels with analytes causes differential fluorophore displacement. The resulting fluorimetric fingerprints are used to train machine-learning models that relate the patterns to the analytes. We show that this system discriminates between a range of biomolecules, drink, and diagnostically relevant biological samples. As alphaHBs are robust and chemically diverse, the system has potential to sense many analytes in various settings.
		+
		+	Differential sensing with arrays of de novo designed peptide assemblies.,Dawson WM, Shelley KL, Fletcher JM, Scott DA, Lombardi L, Rhys GG, LaGambina TJ, Obst U, Burton AJ, Cross JA, Davies G, Martin FJO, Wiseman FJ, Brady RL, Tew D, Wood CW, Woolfson DN Nat Commun. 2023 Jan 24;14(1):383. doi: 10.1038/s41467-023-36024-y. PMID:36693847<ref>PMID:36693847</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7nff" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Synthetic construct]]
	[[Category: Brady RL]]		[[Category: Brady RL]]
	[[Category: Dawson WM]]		[[Category: Dawson WM]]
	[[Category: Rhys GG]]		[[Category: Rhys GG]]
	[[Category: Woolfson DN]]		[[Category: Woolfson DN]]

OCA at 06:18, 2 March 2022

2022-03-02T06:18:08Z

←Older revision		Revision as of 06:18, 2 March 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7nff is ~~ON HOLD until Paper Publication~~	+	==An octameric barrel state of a de novo coiled-coil assembly: CC-Type2-(LaId)4-I24A.==
-		+	<StructureSection load='7nff' size='340' side='right'caption='[[7nff]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NFF FirstGlance]. <br>
-	~~Description~~:	+	</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=7nff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nff OCA], [https://pdbe.org/7nff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nff RCSB], [https://www.ebi.ac.uk/pdbsum/7nff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nff ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Brady RL]]
		+	[[Category: Dawson WM]]
		+	[[Category: Rhys GG]]
		+	[[Category: Woolfson DN]]

OCA at 14:54, 10 March 2021

2021-03-10T14:54:15Z

←Older revision		Revision as of 14:54, 10 March 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7nff is ON HOLD	+	The entry 7nff is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7nff" [edit=sysop:move=sysop]

2021-02-17T08:53:38Z

Protected "7nff" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:53, 17 February 2021

OCA: New page: '''Unreleased structure''' The entry 7nff is ON HOLD Authors: Description: Category: Unreleased Structures

2021-02-17T08:53:37Z

New page: '''Unreleased structure''' The entry 7nff is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7nff is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]