6dmq - Revision history

OCA at 06:09, 11 October 2023

2023-10-11T06:09:21Z

←Older revision		Revision as of 06:09, 11 October 2023
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	==Crystal structure of the T27A mutant of human alpha defensin HNP4.==		==Crystal structure of the T27A mutant of human alpha defensin HNP4.==
-	<StructureSection load='6dmq' size='340' side='right' caption='[[6dmq]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='6dmq' size='340' side='right'caption='[[6dmq]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dmq]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6DMQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dmq]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DMQ 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></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]] 1.7Å</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=6dmq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmq OCA], [~~http~~://pdbe.org/6dmq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6dmq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6dmq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmq ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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=6dmq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmq OCA], [https://pdbe.org/6dmq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dmq RCSB], [https://www.ebi.ac.uk/pdbsum/6dmq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DEF4_HUMAN DEF4_HUMAN]] Has antimicrobial activity against Gram-negative bacteria, and to a lesser extent also against Gram-positive bacteria and fungi. Protects blood cells against infection with HIV-1 (in vitro). Inhibits corticotropin (ACTH)-stimulated corticosterone production.<ref>PMID:15616305</ref> <ref>PMID:15620707</ref>	+	[https://www.uniprot.org/uniprot/DEF4_HUMAN DEF4_HUMAN] Has antimicrobial activity against Gram-negative bacteria, and to a lesser extent also against Gram-positive bacteria and fungi. Protects blood cells against infection with HIV-1 (in vitro). Inhibits corticotropin (ACTH)-stimulated corticosterone production.<ref>PMID:15616305</ref> <ref>PMID:15620707</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6dmq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6dmq" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Defensin 3D structures\|Defensin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Gohain, N~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Pazgier, M~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Tolbert, W D~~]]	+	[[Category: Gohain N]]
-	[[Category: ~~Antimicrobial peptide~~]]	+	[[Category: Pazgier M]]
-	[[Category: ~~Antimicrobial protein]]~~	+	[[Category: Tolbert WD]]
-	~~[[Category: Human alpha-defensin~~]]	+

OCA at 08:15, 30 January 2019

2019-01-30T08:15:25Z

←Older revision		Revision as of 08:15, 30 January 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6dmq is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of the T27A mutant of human alpha defensin HNP4.==
		+	<StructureSection load='6dmq' size='340' side='right' caption='[[6dmq]], [[Resolution\|resolution]] 1.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6dmq]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DMQ 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></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=6dmq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmq OCA], [http://pdbe.org/6dmq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dmq RCSB], [http://www.ebi.ac.uk/pdbsum/6dmq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmq ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DEF4_HUMAN DEF4_HUMAN]] Has antimicrobial activity against Gram-negative bacteria, and to a lesser extent also against Gram-positive bacteria and fungi. Protects blood cells against infection with HIV-1 (in vitro). Inhibits corticotropin (ACTH)-stimulated corticosterone production.<ref>PMID:15616305</ref> <ref>PMID:15620707</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Defensins are a family of cationic antimicrobial peptides of innate immunity with immunomodulatory properties. The prototypic human alpha-defensins, also known as human neutrophil peptides 1-3 or HNP1-3, are extensively studied for their structure, function and mechanisms of action, yet little is known about HNP4 - the much less abundant "distant cousin" of HNP1-3. Here we report a systematic mutational analysis of HNP4 with respect to its antibacterial activity against E. coli and S. aureus, inhibitory activity against anthrax lethal factor (LF), and binding activity for LF and HIV-1 gp120. Except for nine conserved and structurally important residues (6xCys, 1xArg, 1xGlu and 1xGly), the remaining 24 residues of HNP4 were each individually mutated to Ala. The crystal structures of G23A-HNP4 and T27A-HNP4 were determined, both exhibiting a disulfide-stabilized canonical alpha-defensin dimer identical to wild-type HNP4. Unlike HNP1-3, HNP4 preferentially killed the Gram-negative bacterium, a property largely attributable to three clustered cationic residues Arg10, Arg11 and Arg15. The cationic cluster was also important for HNP4 killing of S. aureus, inhibition of LF and binding to LF and gp120. However, F26A, while functionally inconsequential for E. coli killing, was far more deleterious than any other mutations. Similarly, N-methylation of Leu20 to destabilize the HNP4 dimer had little effect on E. coli killing, but significantly reduced the ability of HNP4 to kill S. aureus, inhibit LF, and bind to LF and gp120. Our findings unveil the molecular determinants of HNP4 function, completing the atlas of structure and function relationships for all human neutrophil alpha-defensins.

-	~~Authors: Gohain, N~~., Tolbert, W~~.D.~~, ~~Pazgier~~, M.	+	Systematic mutational analysis of human neutrophil alpha-defensin HNP4.,Hu H, Di B, David Tolbert W, Gohain N, Yuan W, Gao P, Ma B, He Q, Pazgier M, Zhao L, Lu W Biochim Biophys Acta Biomembr. 2019 Jan 15. pii: S0005-2736(19)30010-0. doi:, 10.1016/j.bbamem.2019.01.007. PMID:30658057<ref>PMID:30658057</ref>

-	~~Description: Crystal structure~~ of the ~~T27A mutant~~ of ~~human alpha defensin HNP4~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 6dmq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Gohain, N]]		[[Category: Gohain, N]]
	[[Category: Pazgier, M]]		[[Category: Pazgier, M]]
-	[[Category: Tolbert, W.D]]	+	[[Category: Tolbert, W D]]
		+	[[Category: Antimicrobial peptide]]
		+	[[Category: Antimicrobial protein]]
		+	[[Category: Human alpha-defensin]]

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

2018-06-14T05:43:58Z

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

←Older revision

Revision as of 05:43, 14 June 2018

OCA: New page: '''Unreleased structure''' The entry 6dmq is ON HOLD until Paper Publication Authors: Gohain, N., Tolbert, W.D., Pazgier, M. Description: Crystal structure of the T27A mutant of human ...

2018-06-14T05:43:55Z

New page: '''Unreleased structure''' The entry 6dmq is ON HOLD until Paper Publication Authors: Gohain, N., Tolbert, W.D., Pazgier, M. Description: Crystal structure of the T27A mutant of human ...

New page

'''Unreleased structure'''

The entry 6dmq is ON HOLD until Paper Publication

Authors: Gohain, N., Tolbert, W.D., Pazgier, M.

Description: Crystal structure of the T27A mutant of human alpha defensin HNP4.
[[Category: Unreleased Structures]]
[[Category: Gohain, N]]
[[Category: Pazgier, M]]
[[Category: Tolbert, W.D]]