6ksh - Revision history

OCA at 10:42, 22 November 2023

2023-11-22T10:42:22Z

← Older revision		Revision as of 10:42, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='6ksh' size='340' side='right'caption='[[6ksh]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='6ksh' size='340' side='right'caption='[[6ksh]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6ksh]] is a 4 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=6KSH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6KSH FirstGlance]. <br>		<table><tr><td colspan='2'>[[6ksh]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_falciparum_3D7 Plasmodium falciparum 3D7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KSH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KSH FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PF3D7_0626800 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=36329 PLAF7])</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyruvate_kinase Pyruvate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.40 2.7.1.40] </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=6ksh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ksh OCA], [https://pdbe.org/6ksh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ksh RCSB], [https://www.ebi.ac.uk/pdbsum/6ksh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ksh 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=6ksh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ksh OCA], [~~http~~://pdbe.org/6ksh PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ksh RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ksh PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ksh ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/C6KTA4_PLAF7 C6KTA4_PLAF7]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Plaf7]]~~		[[Category: Plasmodium falciparum 3D7]]
	~~[[Category: Pyruvate kinase~~]]		[[Category: Cai Q]]
	[[Category: Cai, Q]]		[[Category: Dedon PC]]
	[[Category: Dedon~~, P C~~]]		[[Category: Lescar J]]
	[[Category: Lescar, J]]		[[Category: Li K]]
	[[Category: Li, K]]		[[Category: Zhong W]]
	[[Category: Zhong, W]]
	~~[[Category: Allostery]]~~
	~~[[Category: Glycolysis]]~~
	~~[[Category: Tetramer]]~~
	~~[[Category: Transferase~~]]

OCA at 20:40, 28 October 2020

2020-10-28T20:40:49Z

← Older revision		Revision as of 20:40, 28 October 2020
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 6ksh" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ksh" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Pyruvate kinase 3D structures\|Pyruvate kinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:02, 16 September 2020

2020-09-16T10:02:47Z

← Older revision		Revision as of 10:02, 16 September 2020
Line 1:		Line 1:

	==Crystal structure of pyruvate kinase (PYK) from Plasmodium falciparum in complex with oxalate and ATP==		==Crystal structure of pyruvate kinase (PYK) from Plasmodium falciparum in complex with oxalate and ATP==
	<StructureSection load='6ksh' size='340' side='right'caption='[[6ksh]]' scene=''>		<StructureSection load='6ksh' size='340' side='right'caption='[[6ksh]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KSH OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6KSH FirstGlance]. <br>		<table><tr><td colspan='2'>[[6ksh]] is a 4 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=6KSH OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6KSH FirstGlance]. <br>
	</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=6ksh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ksh OCA], [http://pdbe.org/6ksh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ksh RCSB], [http://www.ebi.ac.uk/pdbsum/6ksh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ksh ProSAT]</span></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PF3D7_0626800 ([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/Pyruvate_kinase Pyruvate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.40 2.7.1.40] </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=6ksh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ksh OCA], [http://pdbe.org/6ksh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ksh RCSB], [http://www.ebi.ac.uk/pdbsum/6ksh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ksh ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			During its intra-erythrocytic growth phase, the malaria parasite Plasmodium falciparum relies heavily on glycolysis for its energy requirements. Pyruvate kinase (PYK) is essential for regulating glycolytic flux and for ATP production, yet the allosteric mechanism of P. falciparum PYK (PfPYK) remains poorly understood. Here we report the first crystal structure of PfPYK in complex with substrate analogues oxalate and the ATP product. Comparisons of PfPYK structures in the active R-state and inactive T-state reveal a 'rock-and-lock' allosteric mechanism regulated by rigid-body rotations of each subunit in the tetramer. Kinetic data and structural analysis indicate glucose 6-phosphate is an activator by increasing the apparent maximal velocity of the enzyme. Intriguingly, the trypanosome drug suramin inhibits PfPYK, which points to glycolysis as a set of potential therapeutic targets against malaria.

			Pyruvate kinase from Plasmodium falciparum: Structural and kinetic insights into the allosteric mechanism.,Zhong W, Li K, Cai Q, Guo J, Yuan M, Wong YH, Walkinshaw MD, Fothergill-Gilmore LA, Michels PAM, Dedon PC, Lescar J Biochem Biophys Res Commun. 2020 Aug 30. pii: S0006-291X(20)31645-4. doi:, 10.1016/j.bbrc.2020.08.048. PMID:32878705<ref>PMID:32878705</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 6ksh" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Cai Q]]		[[Category: Plaf7]]
	[[Category: Dedon PC]]		[[Category: Pyruvate kinase]]
	[[Category: Lescar J]]		[[Category: Cai, Q]]
	[[Category: Li K]]		[[Category: Dedon, P C]]
	[[Category: Zhong W]]		[[Category: Lescar, J]]
			[[Category: Li, K]]
			[[Category: Zhong, W]]
			[[Category: Allostery]]
			[[Category: Glycolysis]]
			[[Category: Tetramer]]
			[[Category: Transferase]]

OCA at 11:11, 26 August 2020

2020-08-26T11:11:02Z

← Older revision		Revision as of 11:11, 26 August 2020
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	~~The entry~~ 6ksh is ~~ON HOLD until Paper Publication~~		==Crystal structure of pyruvate kinase (PYK) from Plasmodium falciparum in complex with oxalate and ATP==
			<StructureSection load='6ksh' size='340' side='right'caption='[[6ksh]]' scene=''>
	~~Authors~~: ~~Zhong~~, W., ~~Cai~~, Q., ~~Li, K~~.~~, Lescar, J~~., ~~Dedon, P~~.C.		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KSH OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6KSH FirstGlance]. <br>
	~~Description: Crystal structure of pyruvate kinase (PYK) from Plasmodium falciparum in complex with oxalate and ATP~~		</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=6ksh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ksh OCA], [http://pdbe.org/6ksh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ksh RCSB], [http://www.ebi.ac.uk/pdbsum/6ksh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ksh ProSAT]</span></td></tr>
	[[Category: ~~Unreleased~~ Structures]]		</table>
	[[Category: Cai, Q]]		__TOC__
	[[Category: ~~Lescar, J~~]]		</StructureSection>
	[[Category: ~~Li, K~~]]		[[Category: Large Structures]]
	[[Category: ~~Dedon, P.C~~]]		[[Category: Cai Q]]
	[[Category: Zhong, W]]		[[Category: Dedon PC]]
			[[Category: Lescar J]]
			[[Category: Li K]]
			[[Category: Zhong W]]

OCA at 05:34, 18 December 2019

2019-12-18T05:34:22Z

← Older revision		Revision as of 05:34, 18 December 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 6ksh is ON HOLD		The entry 6ksh is ON HOLD until Paper Publication

	Authors: Zhong, W., Cai, Q., Li, K., Lescar, J., Dedon, P.C.		Authors: Zhong, W., Cai, Q., Li, K., Lescar, J., Dedon, P.C.

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

2019-08-28T13:42:42Z

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

← Older revision	Revision as of 13:42, 28 August 2019
(No difference)

OCA: New page: '''Unreleased structure''' The entry 6ksh is ON HOLD Authors: Zhong, W., Cai, Q., Li, K., Lescar, J., Dedon, P.C. Description: Crystal structure of pyruvate kinase (PYK) from Plasmodiu...

2019-08-28T13:42:40Z

New page: '''Unreleased structure''' The entry 6ksh is ON HOLD Authors: Zhong, W., Cai, Q., Li, K., Lescar, J., Dedon, P.C. Description: Crystal structure of pyruvate kinase (PYK) from Plasmodiu...

New page

'''Unreleased structure'''

The entry 6ksh is ON HOLD

Authors: Zhong, W., Cai, Q., Li, K., Lescar, J., Dedon, P.C.

Description: Crystal structure of pyruvate kinase (PYK) from Plasmodium falciparum in complex with oxalate and ATP
[[Category: Unreleased Structures]]
[[Category: Cai, Q]]
[[Category: Lescar, J]]
[[Category: Li, K]]
[[Category: Dedon, P.C]]
[[Category: Zhong, W]]