5wrx - Revision history

OCA at 10:29, 14 June 2023

OCA — Wed, 14 Jun 2023 10:29:55 GMT

←Older revision		Revision as of 10:29, 14 June 2023
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	==VG13P structure in LPS==		==VG13P structure in LPS==
-	<StructureSection load='5wrx' size='340' side='right'caption='[[5wrx~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='5wrx' size='340' side='right'caption='[[5wrx]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wrx]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WRX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5WRX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wrx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WRX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WRX FirstGlance]. <br>
-	</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=5wrx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wrx OCA], [~~http~~://pdbe.org/5wrx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wrx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wrx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wrx ProSAT]</span></td></tr>	+	</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=5wrx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wrx OCA], [https://pdbe.org/5wrx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wrx RCSB], [https://www.ebi.ac.uk/pdbsum/5wrx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wrx 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: ~~Bhunia, A~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Datta,~~ A]]	+	[[Category: Bhunia A]]
-	[[Category: ~~Antimicrobial peptide]]~~	+	[[Category: Datta A]]
-	~~[[Category: Antimicrobial protein]]~~	+
-	~~[[Category: De novo protein]]~~	+
-	~~[[Category: Endotoxin neutralisation]]~~	+
-	~~[[Category: Turn and loop-like structure~~]]	+

OCA at 07:15, 7 October 2020

OCA — Wed, 07 Oct 2020 07:15:35 GMT

←Older revision		Revision as of 07:15, 7 October 2020
Line 1:		Line 1:

	==VG13P structure in LPS==		==VG13P structure in LPS==
-	<StructureSection load='5wrx' size='340' side='right' caption='[[5wrx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='5wrx' size='340' side='right'caption='[[5wrx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wrx]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WRX OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WRX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wrx]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WRX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5WRX FirstGlance]. <br>
-	</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=5wrx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wrx OCA], [http://pdbe.org/5wrx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wrx RCSB], [http://www.ebi.ac.uk/pdbsum/5wrx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wrx ProSAT]</span></td></tr>	+	</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=5wrx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wrx OCA], [http://pdbe.org/5wrx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wrx RCSB], [http://www.ebi.ac.uk/pdbsum/5wrx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wrx 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: Bhunia, A]]		[[Category: Bhunia, A]]
	[[Category: Datta, A]]		[[Category: Datta, A]]

OCA at 12:54, 10 May 2017

OCA — Wed, 10 May 2017 12:54:18 GMT

←Older revision		Revision as of 12:54, 10 May 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5wrx is ~~ON HOLD~~	+	==VG13P structure in LPS==
		+	<StructureSection load='5wrx' size='340' side='right' caption='[[5wrx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5wrx]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WRX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WRX FirstGlance]. <br>
		+	</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=5wrx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wrx OCA], [http://pdbe.org/5wrx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wrx RCSB], [http://www.ebi.ac.uk/pdbsum/5wrx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wrx ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In this study, we report an interaction study of a 13-residue analogue peptide VG13P (VARGWGRKCPLFG), derived from a designed VG16KRKP peptide (VARGWKRKCPLFGKGG), with a Lys6Gly mutation and removal of the last three residues Lys14-Gly15-Gly16, in lipopolysaccharide (LPS), a major component of the outer membrane of Gram-negative bacteria and responsible for sepsis or septic shock. VG13P displays an enhanced anti-endotoxin property as evident from significant reduction in LPS-induced TNF-alpha gene expression levels in a monocytic cell line, while it retains almost unchanged antimicrobial activity as its parent VG16KRKP against Gram-negative bacterial as well as fungal pathogens. In addition, in vitro LPS binding properties of VG13P in comparison to its parent VG16KRKP also remained unhindered, suggesting that the flexible C-terminal end of VG16KRKP may not play a major role in its observed antibacterial and LPS binding properties. An NMR-resolved solution structure of VG13P in LPS reveals two consecutive beta-turns: one at the N-terminus, followed by another at the central region, closely resembling a rocking chair. The crucial Lys6Gly mutation along with C-terminal truncation from VG16KRKP reorients the hydrophobic hub in VG13P in a unique way so as to fold the N-terminal end back on itself, forming a turn and allowing Val1 and Ala2 to interact with Leu11 and Phe12 to bring the hydrophobic residues closer together to form a more compact hub compared to its parent. The hub is further strengthened via CH-pi interaction between Gly4 and Phe12. This accounts for its improved anti-endotoxin activity as well as to its uninterrupted antimicrobial activity.

-	~~Authors~~:	+	Structural and Dynamic Insights into a Glycine-Mediated Short Analogue of a Designed Peptide in Lipopolysaccharide Micelles: Correlation Between Compact Structure and Anti-Endotoxin Activity.,Datta A, Jaiswal N, Ilyas H, Debnath S, Biswas K, Kumar D, Bhunia A Biochemistry. 2017 Mar 7;56(9):1348-1362. doi: 10.1021/acs.biochem.6b01229. Epub , 2017 Feb 21. PMID:28168875<ref>PMID:28168875</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5wrx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bhunia, A]]
		+	[[Category: Datta, A]]
		+	[[Category: Antimicrobial peptide]]
		+	[[Category: Antimicrobial protein]]
		+	[[Category: De novo protein]]
		+	[[Category: Endotoxin neutralisation]]
		+	[[Category: Turn and loop-like structure]]

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

OCA — Thu, 15 Dec 2016 17:54:31 GMT

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

←Older revision

Revision as of 17:54, 15 December 2016

OCA: New page: '''Unreleased structure''' The entry 5wrx is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Thu, 15 Dec 2016 17:54:30 GMT

New page: '''Unreleased structure''' The entry 5wrx is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5wrx is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]