6c4x - Revision history

OCA at 14:26, 13 March 2024

2024-03-13T14:26:28Z

←Older revision		Revision as of 14:26, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='6c4x' size='340' side='right'caption='[[6c4x]], [[Resolution\|resolution]] 3.55Å' scene=''>		<StructureSection load='6c4x' size='340' side='right'caption='[[6c4x]], [[Resolution\|resolution]] 3.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6c4x]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C4X OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6C4X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6c4x]] is a 8 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=6C4X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6C4X FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=MPD:(4S)~~-~~2-METHYL-2~~,~~4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 3.55Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></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=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=6c4x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c4x OCA], [~~http~~://pdbe.org/6c4x PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6c4x RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6c4x PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6c4x 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=6c4x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c4x OCA], [https://pdbe.org/6c4x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6c4x RCSB], [https://www.ebi.ac.uk/pdbsum/6c4x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6c4x ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Amyloids adopt 'cross-beta' structures composed of long, twisted fibrils with beta-strands running perpendicular to the fibril axis. Recently, a toxic peptide was proposed to form amyloid-like cross-alpha structures in solution, with a planar bilayer-like assembly observed in the crystal structure. Here we crystallographically characterize designed peptides that assemble into spiraling cross-alpha amyloid-like structures, which resemble twisted beta-amyloid fibrils. The peptides form helical dimers, stabilized by packing of small and apolar residues, and the dimers further assemble into cross-alpha amyloid-like fibrils with superhelical pitches ranging from 170 A to 200 A. When a small residue that appeared critical for packing was converted to leucine, it resulted in structural rearrangement to a helical polymer. Fluorescently tagged versions of the designed peptides form puncta in mammalian cells, which recover from photobleaching with markedly different kinetics. These structural folds could be potentially useful for directing in vivo protein assemblies with predetermined spacing and stabilities.
-
-	Designed peptides that assemble into cross-alpha amyloid-like structures.,Zhang SQ, Huang H, Yang J, Kratochvil HT, Lolicato M, Liu Y, Shu X, Liu L, DeGrado WF Nat Chem Biol. 2018 Jul 30. pii: 10.1038/s41589-018-0105-5. doi:, 10.1038/s41589-018-0105-5. PMID:30061717<ref>PMID:30061717</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6c4x" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Liu, L~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Zhang, S Q~~]]	+	[[Category: Liu L]]
-	[[Category: ~~Cross-alpha amyloid]]~~	+	[[Category: Zhang SQ]]
-	~~[[Category: De novo protein]]~~	+
-	~~[[Category: Protein design~~]]	+

OCA at 09:30, 18 December 2019

2019-12-18T09:30:13Z

←Older revision		Revision as of 09:30, 18 December 2019
Line 1:		Line 1:

	==Cross-alpha Amyloid-like Structure alphaAmmem==		==Cross-alpha Amyloid-like Structure alphaAmmem==
-	<StructureSection load='6c4x' size='340' side='right' caption='[[6c4x]], [[Resolution\|resolution]] 3.55Å' scene=''>	+	<StructureSection load='6c4x' size='340' side='right'caption='[[6c4x]], [[Resolution\|resolution]] 3.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6c4x]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C4X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C4X FirstGlance]. <br>		<table><tr><td colspan='2'>[[6c4x]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C4X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C4X FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Liu, L]]		[[Category: Liu, L]]
	[[Category: Zhang, S Q]]		[[Category: Zhang, S Q]]

OCA at 16:12, 15 August 2018

2018-08-15T16:12:14Z

←Older revision		Revision as of 16:12, 15 August 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6c4x is ~~ON HOLD~~	+	==Cross-alpha Amyloid-like Structure alphaAmmem==
		+	<StructureSection load='6c4x' size='340' side='right' caption='[[6c4x]], [[Resolution\|resolution]] 3.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6c4x]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C4X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C4X FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></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=6c4x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c4x OCA], [http://pdbe.org/6c4x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6c4x RCSB], [http://www.ebi.ac.uk/pdbsum/6c4x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6c4x ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Amyloids adopt 'cross-beta' structures composed of long, twisted fibrils with beta-strands running perpendicular to the fibril axis. Recently, a toxic peptide was proposed to form amyloid-like cross-alpha structures in solution, with a planar bilayer-like assembly observed in the crystal structure. Here we crystallographically characterize designed peptides that assemble into spiraling cross-alpha amyloid-like structures, which resemble twisted beta-amyloid fibrils. The peptides form helical dimers, stabilized by packing of small and apolar residues, and the dimers further assemble into cross-alpha amyloid-like fibrils with superhelical pitches ranging from 170 A to 200 A. When a small residue that appeared critical for packing was converted to leucine, it resulted in structural rearrangement to a helical polymer. Fluorescently tagged versions of the designed peptides form puncta in mammalian cells, which recover from photobleaching with markedly different kinetics. These structural folds could be potentially useful for directing in vivo protein assemblies with predetermined spacing and stabilities.

-	~~Authors:~~ Liu, L., ~~Zhang, S~~.Q.	+	Designed peptides that assemble into cross-alpha amyloid-like structures.,Zhang SQ, Huang H, Yang J, Kratochvil HT, Lolicato M, Liu Y, Shu X, Liu L, DeGrado WF Nat Chem Biol. 2018 Jul 30. pii: 10.1038/s41589-018-0105-5. doi:, 10.1038/s41589-018-0105-5. PMID:30061717<ref>PMID:30061717</ref>

-	~~Description: Cross~~-~~alpha Amyloid~~-~~like Structure alphaAmmem~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 6c4x" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Liu, L]]		[[Category: Liu, L]]
-	[[Category: Zhang, S.Q]]	+	[[Category: Zhang, S Q]]
		+	[[Category: Cross-alpha amyloid]]
		+	[[Category: De novo protein]]
		+	[[Category: Protein design]]

OCA: Protected "6c4x" [edit=sysop:move=sysop]

2018-01-24T17:19:13Z

Protected "6c4x" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:19, 24 January 2018

OCA: New page: '''Unreleased structure''' The entry 6c4x is ON HOLD Authors: Liu, L., Zhang, S.Q. Description: Cross-alpha Amyloid-like Structure alphaAmmem Category: Unreleased Structures [[Cate...

2018-01-24T17:19:12Z

New page: '''Unreleased structure''' The entry 6c4x is ON HOLD Authors: Liu, L., Zhang, S.Q. Description: Cross-alpha Amyloid-like Structure alphaAmmem Category: Unreleased Structures [[Cate...

New page

'''Unreleased structure'''

The entry 6c4x is ON HOLD

Authors: Liu, L., Zhang, S.Q.

Description: Cross-alpha Amyloid-like Structure alphaAmmem
[[Category: Unreleased Structures]]
[[Category: Liu, L]]
[[Category: Zhang, S.Q]]