6fqy - Revision history

OCA at 06:57, 24 October 2018

OCA — Wed, 24 Oct 2018 06:57:11 GMT

←Older revision		Revision as of 06:57, 24 October 2018
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	<StructureSection load='6fqy' size='340' side='right' caption='[[6fqy]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='6fqy' size='340' side='right' caption='[[6fqy]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6fqy]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FQY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FQY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6fqy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Plaf7 Plaf7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FQY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FQY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6fqz\|6fqz]], [[6fqx\|6fqx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6fqz\|6fqz]], [[6fqx\|6fqx]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PF14_0520, PF3D7_1454700 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=36329 PLAF7])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphogluconate_dehydrogenase_(NADP(+)-dependent,_decarboxylating) Phosphogluconate dehydrogenase (NADP(+)-dependent, decarboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.44 1.1.1.44] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphogluconate_dehydrogenase_(NADP(+)-dependent,_decarboxylating) Phosphogluconate dehydrogenase (NADP(+)-dependent, decarboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.44 1.1.1.44] </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=6fqy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6fqy OCA], [http://pdbe.org/6fqy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6fqy RCSB], [http://www.ebi.ac.uk/pdbsum/6fqy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6fqy 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=6fqy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6fqy OCA], [http://pdbe.org/6fqy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6fqy RCSB], [http://www.ebi.ac.uk/pdbsum/6fqy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6fqy ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Plaf7]]
	[[Category: Becker, K]]		[[Category: Becker, K]]
	[[Category: Fritz-Wolf, K]]		[[Category: Fritz-Wolf, K]]

OCA at 06:11, 22 August 2018

OCA — Wed, 22 Aug 2018 06:11:49 GMT

←Older revision		Revision as of 06:11, 22 August 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6fqy is ~~ON HOLD until Paper~~ Publication	+	==Plasmodium falciparum 6-phosphogluconate dehydrogenase in its apo form, in complex with its cofactor NADP+ and in complex with its substrate 6-phosphogluconate==
		+	<StructureSection load='6fqy' size='340' side='right' caption='[[6fqy]], [[Resolution\|resolution]] 2.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6fqy]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FQY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FQY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6fqz\|6fqz]], [[6fqx\|6fqx]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphogluconate_dehydrogenase_(NADP(+)-dependent,_decarboxylating) Phosphogluconate dehydrogenase (NADP(+)-dependent, decarboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.44 1.1.1.44] </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=6fqy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6fqy OCA], [http://pdbe.org/6fqy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6fqy RCSB], [http://www.ebi.ac.uk/pdbsum/6fqy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6fqy ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q8IKT2_PLAF7 Q8IKT2_PLAF7]] Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH.[PIRNR:PIRNR000109]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The enzyme 6-phosphogluconate dehydrogenase (6PGD) of the malaria parasite Plasmodium falciparum catalyzes the third step of the pentose phosphate pathway converting 6-phosphogluconate (6PG) to ribulose 5-phosphate. The NADPH produced by 6PGD is crucial for antioxidant defense and redox regulation, and ribose 5-phosphate is essential for DNA and RNA synthesis in the rapidly growing parasite. Thus, 6PGD represents an attractive antimalarial drug target. In this study, we present the X-ray structures of Pf6PGD in native form as well as in complex with 6PG or nicotinamide adenine dinucleotide phosphate (NADP(+)) at resolutions of 2.8, 1.9, and 2.9A, respectively. The overall structure of the protein is similar to structures of 6PGDs from other species; however, a flexible loop close to the active site rearranges upon binding of 6PG and likely regulates the conformation of the cofactor NADP(+). Upon binding of 6PG, the active site loop adopts a closed conformation. In the absence of 6PG, the loop opens and NADP(+) is bound in a waiting position, indicating that the cofactor and 6PG bind independently from each other. This sequential binding mechanism was supported by kinetic studies on the homodimeric wild-type Pf6PGD. Furthermore, the function of the Plasmodium-specific residue W104L mutant was characterized by site-directed mutagenesis. Notably, the activity of Pf6PGD was found to be post-translationally redox regulated via S-nitrosylation, and screening the Medicines for Malaria Venture Malaria Box identified several compounds with IC50s in the low micromolar range. Together with the three-dimensional structure of the protein, this is a promising starting point for further drug discovery approaches.

-	~~Authors~~:	+	Characterization of Plasmodium falciparum 6-Phosphogluconate Dehydrogenase as an Antimalarial Drug Target.,Haeussler K, Fritz-Wolf K, Reichmann M, Rahlfs S, Becker K J Mol Biol. 2018 Aug 8. pii: S0022-2836(18)30513-8. doi:, 10.1016/j.jmb.2018.07.030. PMID:30098336<ref>PMID:30098336</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6fqy" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Becker, K]]
		+	[[Category: Fritz-Wolf, K]]
		+	[[Category: Haeussler, K]]
		+	[[Category: Rahlfs, S]]
		+	[[Category: Reichmann, M]]
		+	[[Category: Complex]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Plasmodium]]
		+	[[Category: Redoxregulation]]
		+	[[Category: Substrate]]

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

OCA — Wed, 28 Feb 2018 05:09:17 GMT

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

←Older revision

Revision as of 05:09, 28 February 2018

OCA: New page: '''Unreleased structure''' The entry 6fqy is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 28 Feb 2018 05:09:16 GMT

New page: '''Unreleased structure''' The entry 6fqy is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6fqy is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]