5mp4 - Revision history

OCA at 17:42, 8 November 2023

OCA — Wed, 08 Nov 2023 17:42:44 GMT

←Older revision		Revision as of 17:42, 8 November 2023
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	==The structure of Pst2p from Saccharomyces cerevisiae==		==The structure of Pst2p from Saccharomyces cerevisiae==
-	<StructureSection load='5mp4' size='340' side='right' caption='[[5mp4]], [[Resolution\|resolution]] 2.79Å' scene=''>	+	<StructureSection load='5mp4' size='340' side='right'caption='[[5mp4]], [[Resolution\|resolution]] 2.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mp4]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MP4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MP4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mp4]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MP4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MP4 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.79Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PST2, YDR032C, D3422, YD9673.02C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=559292 Baker~~'~~s yeast])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=5mp4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mp4 OCA], [~~http~~://pdbe.org/5mp4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mp4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mp4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mp4 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=5mp4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mp4 OCA], [https://pdbe.org/5mp4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mp4 RCSB], [https://www.ebi.ac.uk/pdbsum/5mp4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mp4 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PST2_YEAST PST2_YEAST]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Baker's yeast~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Gruber, K~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Hromic, A~~]]	+	[[Category: Gruber K]]
-	[[Category: ~~Flavodoxin-like]]~~	+	[[Category: Hromic A]]
-	~~[[Category: Fmn binding]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Quinone reduction~~]]	+

OCA at 10:28, 16 November 2017

OCA — Thu, 16 Nov 2017 10:28:07 GMT

←Older revision		Revision as of 10:28, 16 November 2017
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	<StructureSection load='5mp4' size='340' side='right' caption='[[5mp4]], [[Resolution\|resolution]] 2.79Å' scene=''>		<StructureSection load='5mp4' size='340' side='right' caption='[[5mp4]], [[Resolution\|resolution]] 2.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mp4]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MP4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MP4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mp4]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MP4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MP4 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PST2, YDR032C, D3422, YD9673.02C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=5mp4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mp4 OCA], [http://pdbe.org/5mp4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mp4 RCSB], [http://www.ebi.ac.uk/pdbsum/5mp4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mp4 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=5mp4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mp4 OCA], [http://pdbe.org/5mp4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mp4 RCSB], [http://www.ebi.ac.uk/pdbsum/5mp4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mp4 ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Baker's yeast]]
	[[Category: Gruber, K]]		[[Category: Gruber, K]]
	[[Category: Hromic, A]]		[[Category: Hromic, A]]

OCA at 13:36, 24 May 2017

OCA — Wed, 24 May 2017 13:36:47 GMT

←Older revision		Revision as of 13:36, 24 May 2017
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-	'''Unreleased structure'''

-	The ~~entry~~ 5mp4 is ~~ON HOLD until Paper~~ Publication	+	==The structure of Pst2p from Saccharomyces cerevisiae==
		+	<StructureSection load='5mp4' size='340' side='right' caption='[[5mp4]], [[Resolution\|resolution]] 2.79Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5mp4]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MP4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MP4 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=5mp4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mp4 OCA], [http://pdbe.org/5mp4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mp4 RCSB], [http://www.ebi.ac.uk/pdbsum/5mp4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mp4 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The genome of the yeast Saccharomyces cerevisiae encodes four flavodoxin-like proteins, namely Lot6p, Pst2p, Rfs1p and Ycp4p. Thus far only Lot6p was characterized in detail demonstrating that the enzyme possesses NAD(P)H:quinone oxidoreductase activity. In the present study, we heterologously expressed PST2 in Escherichia coli and purified the produced protein to conduct a detailed biochemical and structural characterization. Determination of the three-dimensional structure by X-ray crystallography revealed that Pst2p adopts the flavodoxin-like fold and forms tetramers independent of cofactor binding. The lack of electron density for FMN indicated weak binding, which was confirmed by further biochemical analysis yielding a dissociation constant of 20+/-1muM. The redox potential of FMN bound to Pst2p was determined to -89+/-3mV and is thus 119mV more positive than that of free FMN indicating that reduced FMN binds ca. five orders of magnitude tighter to Pst2p than oxidized FMN. Due to this rather positive redox potential Pst2p is unable to reduce free FMN or azo dyes as reported for other members of the flavodoxin-like protein family. On the other hand, Pst2p efficiently catalyzes the NAD(P)H dependent two-electron reduction of natural and artificial quinones. The kinetic mechanism follows a ping-pong bi-bi reaction scheme. In vivo experiments with a PST2 knock out and overexpressing strain demonstrated that Pst2p enables yeast cells to cope with quinone-induced damage suggesting a role of the enzyme in managing oxidative stress.

-	~~Authors~~: ~~Hromic~~, A., ~~Gruber~~, K.	+	Structure, biochemical and kinetic properties of recombinant Pst2p from Saccharomyces cerevisiae, a FMN-dependent NAD(P)H:quinone oxidoreductase.,Koch K, Hromic A, Sorokina M, Strandback E, Reisinger M, Gruber K, Macheroux P Biochim Biophys Acta. 2017 May 10. pii: S1570-9639(17)30087-0. doi:, 10.1016/j.bbapap.2017.05.005. PMID:28499769<ref>PMID:28499769</ref>

-	~~Description: The structure~~ of ~~Pst2p from Saccharomyces cerevisiae~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Hromic, A]]~~	+	<div class="pdbe-citations 5mp4" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Gruber, K]]		[[Category: Gruber, K]]
		+	[[Category: Hromic, A]]
		+	[[Category: Flavodoxin-like]]
		+	[[Category: Fmn binding]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Quinone reduction]]

OCA: Protected "5mp4" [edit=sysop:move=sysop]

OCA — Thu, 22 Dec 2016 19:16:52 GMT

Protected "5mp4" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:16, 22 December 2016

OCA: New page: '''Unreleased structure''' The entry 5mp4 is ON HOLD until Paper Publication Authors: Hromic, A., Gruber, K. Description: The structure of Pst2p from Saccharomyces cerevisiae [[Categor...

OCA — Thu, 22 Dec 2016 19:16:51 GMT

New page: '''Unreleased structure''' The entry 5mp4 is ON HOLD until Paper Publication Authors: Hromic, A., Gruber, K. Description: The structure of Pst2p from Saccharomyces cerevisiae [[Categor...

New page

'''Unreleased structure'''

The entry 5mp4 is ON HOLD until Paper Publication

Authors: Hromic, A., Gruber, K.

Description: The structure of Pst2p from Saccharomyces cerevisiae
[[Category: Unreleased Structures]]
[[Category: Hromic, A]]
[[Category: Gruber, K]]