5vyp - Revision history

OCA at 14:02, 4 October 2023

OCA — Wed, 04 Oct 2023 14:02:53 GMT

←Older revision		Revision as of 14:02, 4 October 2023
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	<StructureSection load='5vyp' size='340' side='right'caption='[[5vyp]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='5vyp' size='340' side='right'caption='[[5vyp]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vyp]] is a 24 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Australian_tobacco Australian tobacco~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VYP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5VYP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vyp]] is a 24 chain structure with sequence from [https://en.wikipedia.org/wiki/Nicotiana_suaveolens Nicotiana suaveolens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VYP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VYP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PIO:[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL]+OCTANOATE'>PIO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.6Å</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=5vyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vyp OCA], [~~http~~://pdbe.org/5vyp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5vyp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5vyp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5vyp ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PIO:[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL]+OCTANOATE'>PIO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=5vyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vyp OCA], [https://pdbe.org/5vyp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vyp RCSB], [https://www.ebi.ac.uk/pdbsum/5vyp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vyp ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DEF_NICSU DEF_NICSU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Australian tobacco]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hulett, M~~]]	+	[[Category: Nicotiana suaveolens]]
-	[[Category: ~~Jarva,~~ M]]	+	[[Category: Hulett M]]
-	[[Category: ~~Kvansakul,~~ M]]	+	[[Category: Jarva M]]
-	[[Category: ~~Lay, F T~~]]	+	[[Category: Kvansakul M]]
-	[[Category: ~~Antifungal]]~~	+	[[Category: Lay FT]]
-	~~[[Category: Antimicrobial]]~~	+
-	~~[[Category: Antimicrobial protein]]~~	+
-	~~[[Category: Defensin~~]]	+

OCA at 09:42, 1 January 2020

OCA — Wed, 01 Jan 2020 09:42:52 GMT

←Older revision		Revision as of 09:42, 1 January 2020
Line 1:		Line 1:

	==Crystal structure of the Plant Defensin NsD7 bound to PIP2==		==Crystal structure of the Plant Defensin NsD7 bound to PIP2==
-	<StructureSection load='5vyp' size='340' side='right' caption='[[5vyp]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='5vyp' size='340' side='right'caption='[[5vyp]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vyp]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VYP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VYP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vyp]] is a 24 chain structure with sequence from [http://en.wikipedia.org/wiki/Australian_tobacco Australian tobacco]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VYP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VYP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PIO:[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL]+OCTANOATE'>PIO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PIO:[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL]+OCTANOATE'>PIO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=5vyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vyp OCA], [http://pdbe.org/5vyp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vyp RCSB], [http://www.ebi.ac.uk/pdbsum/5vyp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vyp ProSAT]</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=5vyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vyp OCA], [http://pdbe.org/5vyp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vyp RCSB], [http://www.ebi.ac.uk/pdbsum/5vyp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vyp ProSAT]</span></td></tr>
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	</div>		</div>
	<div class="pdbe-citations 5vyp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5vyp" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Defensin 3D structures\|Defensin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Australian tobacco]]
		+	[[Category: Large Structures]]
	[[Category: Hulett, M]]		[[Category: Hulett, M]]
	[[Category: Jarva, M]]		[[Category: Jarva, M]]

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

OCA — Fri, 04 Aug 2017 03:57:55 GMT

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

←Older revision

Revision as of 03:57, 4 August 2017

OCA: New page: ==Crystal structure of the Plant Defensin NsD7 bound to PIP2== ==...

OCA — Fri, 04 Aug 2017 03:57:52 GMT

New page: ==Crystal structure of the Plant Defensin NsD7 bound to PIP2== <StructureSection load='5vyp' size='340' side='right' caption='5vyp, resolution 2.60Å' scene=''> ==...

New page

==Crystal structure of the Plant Defensin NsD7 bound to PIP2==
<StructureSection load='5vyp' size='340' side='right' caption='[[5vyp]], [[Resolution|resolution]] 2.60Å' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5vyp]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VYP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VYP FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PIO:[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL]+OCTANOATE'>PIO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=5vyp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vyp OCA], [http://pdbe.org/5vyp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vyp RCSB], [http://www.ebi.ac.uk/pdbsum/5vyp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vyp ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Defensins are innate immune molecules that upon recognition of specific phospholipids can disrupt microbial membranes by forming oligomeric assemblies. Structures of two related plant defensins, NaD1 and NsD7, bound to phosphatidylinositol 4,5-bisphosphate (PIP2 ) and phosphatidic acid (PA), respectively, revealed striking differences in their oligomeric topologies. To understand how NsD7 binds different phospholipids and rationalize the different topologies, we determined the structure of an NsD7-PIP2 complex. This structure reveals fundamental differences in phospholipid binding compared to NsD7-PA, and an oligomeric topology nearly identical to the previously determined NaD1-PIP2 complex, establishing that the PIP2 fibril topology is conserved between NaD1 and NsD7. Our findings highlight the remarkable ability of defensins to bind different types of phospholipids to form oligomeric fibrils with diverse topologies. This article is protected by copyright. All rights reserved.

Structure of the defensin NsD7 in complex with PIP2 reveals that defensin:lipid oligomer topologies are dependent on lipid type.,Jarva M, Lay FT, Hulett MD, Kvansakul M FEBS Lett. 2017 Jul 25. doi: 10.1002/1873-3468.12761. PMID:28741756<ref>PMID:28741756</ref>

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5vyp" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Hulett, M]]
[[Category: Jarva, M]]
[[Category: Kvansakul, M]]
[[Category: Lay, F T]]
[[Category: Antifungal]]
[[Category: Antimicrobial]]
[[Category: Antimicrobial protein]]
[[Category: Defensin]]