2n65 - Revision history

OCA at 09:56, 14 June 2023

2023-06-14T09:56:16Z

←Older revision		Revision as of 09:56, 14 June 2023
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	==Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP==		==Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP==
-	<StructureSection load='2n65' size='340' side='right'caption='[[2n65~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2n65' size='340' side='right'caption='[[2n65]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2N65 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2n65]] is a 2 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=2N65 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2N65 FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2n63\|2n63]]</div></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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [https://pdbe.org/2n65 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [https://www.ebi.ac.uk/pdbsum/2n65 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2n65 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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [https://pdbe.org/2n65 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [https://www.ebi.ac.uk/pdbsum/2n65 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2n65 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 protein]]~~	+	[[Category: Datta A]]
-	~~[[Category: De novo protein]]~~	+
-	~~[[Category: Designed antimicrobial peptide]]~~	+
-	~~[[Category: Disulphide linked vg16krkp homodimer~~]]	+

OCA at 09:05, 23 February 2022

2022-02-23T09:05:17Z

←Older revision		Revision as of 09:05, 23 February 2022
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	<StructureSection load='2n65' size='340' side='right'caption='[[2n65]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2n65' size='340' side='right'caption='[[2n65]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2N65 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2N65 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n63\|2n63]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2n63\|2n63]]</div></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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [~~http~~://pdbe.org/2n65 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2n65 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2n65 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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [https://pdbe.org/2n65 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [https://www.ebi.ac.uk/pdbsum/2n65 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2n65 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:31, 20 May 2020

2020-05-20T06:31:13Z

←Older revision		Revision as of 06:31, 20 May 2020
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	==Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP==		==Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP==
-	<StructureSection load='2n65' size='340' side='right' caption='[[2n65]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2n65' size='340' side='right'caption='[[2n65]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2N65 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2N65 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n63\|2n63]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n63\|2n63]]</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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [http://pdbe.org/2n65 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [http://www.ebi.ac.uk/pdbsum/2n65 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2n65 ProSAT]</span></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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [http://pdbe.org/2n65 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [http://www.ebi.ac.uk/pdbsum/2n65 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2n65 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 17:17, 15 August 2018

2018-08-15T17:17:05Z

←Older revision		Revision as of 17:17, 15 August 2018
Line 5:		Line 5:
	<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2N65 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2N65 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n63\|2n63]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n63\|2n63]]</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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [http://pdbe.org/2n65 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [http://www.ebi.ac.uk/pdbsum/2n65 PDBsum]</span></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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [http://pdbe.org/2n65 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [http://www.ebi.ac.uk/pdbsum/2n65 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2n65 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:55, 11 May 2016

2016-05-11T12:55:45Z

←Older revision		Revision as of 12:55, 11 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 2n65 is ~~ON HOLD until Paper~~ Publication	+	==Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP==
		+	<StructureSection load='2n65' size='340' side='right' caption='[[2n65]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2n65]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N65 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2N65 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n63\|2n63]]</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=2n65 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n65 OCA], [http://pdbe.org/2n65 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n65 RCSB], [http://www.ebi.ac.uk/pdbsum/2n65 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	HYPOTHESIS: The remarkable rise in multi-drug resistant Gram-negative bacterial pathogens is a major concern to the well being of humans as well as susceptible plants. In recent years, diseases associated with inflammation and septicemia have already become a global health issue. Therefore, there is a rising demand for the development of novel "super" antibiotics. In this context, antimicrobial peptides offer an attractive, alternate therapeutic solution to conventional antibiotics. EXPERIMENTS: Microbroth dilution assay was performed to investigate the antimicrobial activities of the two designed peptides against Gram negative bacterial pathogens. Fluorescence studies including NPN dye uptake assay, Calcein entrapped vesicle leakage assay, quenching and anisotropy in presence of lipopolysaccharide (LPS) were performed to elucidate binding interactions and enhanced membrane permeabilisation. Hemolytic assay and endotoxin/LPS neutralisation assay were performed to study the hemolytic effects and LPS scavenging abilities of the peptides. High resolution NMR studies were performed to obtain insights into LPS-peptide interaction at the molecular level. FINDINGS: Here, we report more potent analogues of previously designed peptide VG16KRKP, designed through dimerization via Cys-Cys disulphide linkage and N-terminal lipidation. Similar to the parent peptide, VG16KRKP, the modified analogue peptides are non hemolytic in nature, but possessed, 2-10-fold increase in antibacterial activities against E. coli, human pathogen Pseudomonas aeruginosa and the devastating plant pathogen, Xanthomonas campestris pv. campestris as well as membrane permeabilization, and endotoxin neutralization. LPS bound solution structure of both analogues, as determined by NMR spectroscopy, reveal that the conserved hydrophobic triad motif, formed by Trp5, Leu11 and Phe12 is compactly organized and stabilized either by the acyl chain or disulphide bond. This structural constraint accounts for the separation of polar face from the hydrophobic face of the peptides. Our novel peptides designed through Cys-Cys dimerization and N-terminal lipidation, will serve as a template to develop more potent antimicrobials in future, to control plant and human diseases.

-	~~Authors~~: ~~Datta~~, A., ~~Bhunia~~, A.	+	Designing potent antimicrobial peptides by disulphide linked dimerization and N-terminal lipidation to increase antimicrobial activity and membrane perturbation: Structural insights into lipopolysaccharide binding.,Datta A, Kundu P, Bhunia A J Colloid Interface Sci. 2016 Jan 1;461:335-45. doi: 10.1016/j.jcis.2015.09.036. , Epub 2015 Sep 15. PMID:26407061<ref>PMID:26407061</ref>

-	~~Description: Disulphide linked homodimer~~ of ~~designed antimicrobial peptide VG16KRKP~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Datta, A]]~~	+	<div class="pdbe-citations 2n65" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Bhunia, A]]		[[Category: Bhunia, A]]
		+	[[Category: Datta, A]]
		+	[[Category: Antimicrobial protein]]
		+	[[Category: De novo protein]]
		+	[[Category: Designed antimicrobial peptide]]
		+	[[Category: Disulphide linked vg16krkp homodimer]]

OCA at 06:57, 2 September 2015

2015-09-02T06:57:40Z

←Older revision		Revision as of 06:57, 2 September 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 2n65 is ON HOLD	+	The entry 2n65 is ON HOLD until Paper Publication

	Authors: Datta, A., Bhunia, A.		Authors: Datta, A., Bhunia, A.

OCA: Protected "2n65" [edit=sysop:move=sysop]

2015-08-20T06:52:26Z

Protected "2n65" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:52, 20 August 2015

OCA: New page: '''Unreleased structure''' The entry 2n65 is ON HOLD Authors: Datta, A., Bhunia, A. Description: Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP [[Category: Unre...

2015-08-20T06:52:25Z

New page: '''Unreleased structure''' The entry 2n65 is ON HOLD Authors: Datta, A., Bhunia, A. Description: Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP [[Category: Unre...

New page

'''Unreleased structure'''

The entry 2n65 is ON HOLD

Authors: Datta, A., Bhunia, A.

Description: Disulphide linked homodimer of designed antimicrobial peptide VG16KRKP
[[Category: Unreleased Structures]]
[[Category: Datta, A]]
[[Category: Bhunia, A]]