4hyw - Revision history

OCA at 11:48, 1 March 2024

OCA — Fri, 01 Mar 2024 11:48:12 GMT

←Older revision		Revision as of 11:48, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4hyw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HYW FirstGlance]. <br>		<table><tr><td colspan='2'>[[4hyw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HYW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FDP:FRUCTOSE-2,6-DIPHOSPHATE'>FDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.35Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FDP:FRUCTOSE-2,6-DIPHOSPHATE'>FDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=4hyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hyw OCA], [https://pdbe.org/4hyw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hyw RCSB], [https://www.ebi.ac.uk/pdbsum/4hyw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hyw 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=4hyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hyw OCA], [https://pdbe.org/4hyw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hyw RCSB], [https://www.ebi.ac.uk/pdbsum/4hyw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hyw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/KPYK1_TRYBB KPYK1_TRYBB]		[https://www.uniprot.org/uniprot/KPYK1_TRYBB KPYK1_TRYBB]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The active site of pyruvate kinase (PYK) is located between the AC core of the enzyme and a mobile lid corresponding to domain B. Many PYK structures have already been determined, but the first `effector-only' structure and the first with PEP (the true natural substrate) are now reported for the enzyme from Trypanosoma brucei. PEP soaked into crystals of the enzyme with bound allosteric activator fructose 2,6-bisphosphate (F26BP) and Mg(2+) triggers a substantial 23 degrees rotation of the B domain `in crystallo', resulting in a partially closed active site. The interplay of side chains with Mg(2+) and PEP may explain the mechanism of the domain movement. Furthermore, it is apparent that when F26BP is present but PEP is absent Mg(2+) occupies a position that is distinct from the two canonical Mg(2+)-binding sites at the active site. This third site is adjacent to the active site and involves the same amino-acid side chains as in canonical site 1 but in altered orientations. Site 3 acts to sequester Mg(2+) in a `priming' position such that the enzyme is maintained in its R-state conformation. In this way, Mg(2+) cooperates with F26BP to ensure that the enzyme is in a conformation that has a high affinity for the substrate.
-
-	`In crystallo' substrate binding triggers major domain movements and reveals magnesium as a co-activator of Trypanosoma brucei pyruvate kinase.,Zhong W, Morgan HP, McNae IW, Michels PA, Fothergill-Gilmore LA, Walkinshaw MD Acta Crystallogr D Biol Crystallogr. 2013 Sep 1;69(Pt 9):1768-79. doi:, 10.1107/S0907444913013875. Epub 2013 Aug 17. PMID:23999300<ref>PMID:23999300</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4hyw" style="background-color:#fffaf0;"></div>

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

OCA at 08:27, 9 November 2022

OCA — Wed, 09 Nov 2022 08:27:51 GMT

←Older revision		Revision as of 08:27, 9 November 2022
Line 1:		Line 1:

	==Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP==		==Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP==
-	<StructureSection load='4hyw' size='340' side='right' caption='[[4hyw]], [[Resolution\|resolution]] 2.35Å' scene=''>	+	<StructureSection load='4hyw' size='340' side='right'caption='[[4hyw]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hyw]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Trybb Trybb~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4HYW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hyw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HYW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FDP:FRUCTOSE-2,6-DIPHOSPHATE'>FDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FDP:FRUCTOSE-2,6-DIPHOSPHATE'>FDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hyv\|4hyv]], [[3srk\|3srk]], [[3qv6\|3qv6]], [[3qv7\|3qv7]], [[3qv8\|3qv8]], [[3pp7\|3pp7]], [[3hqn\|3hqn]], [[3hqo\|3hqo]], [[3hqp\|3hqp]], [[3hqq\|3hqq]]</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=4hyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hyw OCA], [https://pdbe.org/4hyw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hyw RCSB], [https://www.ebi.ac.uk/pdbsum/4hyw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hyw ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYK1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5702 TRYBB])</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~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4hyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hyw OCA], [~~http~~://pdbe.org/4hyw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4hyw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4hyw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4hyw ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/KPYK1_TRYBB KPYK1_TRYBB]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 20:

	==See Also==		==See Also==
-	*[[Pyruvate ~~Kinase~~\|Pyruvate ~~Kinase~~]]	+	*[[Pyruvate kinase 3D structures\|Pyruvate kinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pyruvate kinase~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Trybb~~]]	+	[[Category: Trypanosoma brucei brucei]]
-	[[Category: Fothergill-Gilmore~~, L A~~]]	+	[[Category: Fothergill-Gilmore LA]]
-	[[Category: McNae~~, I W~~]]	+	[[Category: McNae IW]]
-	[[Category: Michels~~, P A.M~~]]	+	[[Category: Michels PAM]]
-	[[Category: Morgan~~, H P~~]]	+	[[Category: Morgan HP]]
-	[[Category: Walkinshaw~~, M D~~]]	+	[[Category: Walkinshaw MD]]
-	[[Category: Zhong, W]]	+	[[Category: Zhong W]]
-	~~[[Category: 6-diphosphate binding]]~~	+
-	~~[[Category: Allosteric regulation]]~~	+
-	~~[[Category: Cytosol]]~~	+
-	~~[[Category: Fructose-2]]~~	+
-	~~[[Category: Phosphoenolpyruvate binding]]~~	+
-	~~[[Category: Tetramer]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 13:33, 4 August 2016

OCA — Thu, 04 Aug 2016 13:33:06 GMT

←Older revision		Revision as of 13:33, 4 August 2016
Line 1:		Line 1:
		+
	==Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP==		==Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP==
	<StructureSection load='4hyw' size='340' side='right' caption='[[4hyw]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='4hyw' size='340' side='right' caption='[[4hyw]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hyw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Trypanosoma_brucei_brucei Trypanosoma brucei brucei~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HYW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hyw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trybb Trybb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HYW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FDP:FRUCTOSE-2,6-DIPHOSPHATE'>FDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FDP:FRUCTOSE-2,6-DIPHOSPHATE'>FDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hyv\|4hyv]], [[3srk\|3srk]], [[3qv6\|3qv6]], [[3qv7\|3qv7]], [[3qv8\|3qv8]], [[3pp7\|3pp7]], [[3hqn\|3hqn]], [[3hqo\|3hqo]], [[3hqp\|3hqp]], [[3hqq\|3hqq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hyv\|4hyv]], [[3srk\|3srk]], [[3qv6\|3qv6]], [[3qv7\|3qv7]], [[3qv8\|3qv8]], [[3pp7\|3pp7]], [[3hqn\|3hqn]], [[3hqo\|3hqo]], [[3hqp\|3hqp]], [[3hqq\|3hqq]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYK1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5702 ~~Trypanosoma brucei brucei~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYK1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5702 TRYBB])</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='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://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4hyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hyw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hyw RCSB], [http://www.ebi.ac.uk/pdbsum/4hyw PDBsum]</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=4hyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hyw OCA], [http://pdbe.org/4hyw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hyw RCSB], [http://www.ebi.ac.uk/pdbsum/4hyw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hyw ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 18:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4hyw" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Pyruvate Kinase\|Pyruvate Kinase]]
	== References ==		== References ==
	<references/>		<references/>
Line 22:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Pyruvate kinase]]		[[Category: Pyruvate kinase]]
-	[[Category: ~~Trypanosoma brucei brucei~~]]	+	[[Category: Trybb]]
	[[Category: Fothergill-Gilmore, L A]]		[[Category: Fothergill-Gilmore, L A]]
	[[Category: McNae, I W]]		[[Category: McNae, I W]]

OCA at 12:15, 21 December 2014

OCA — Sun, 21 Dec 2014 12:15:58 GMT

←Older revision		Revision as of 12:15, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4hyw~~\| ~~PDB~~=4hyw \| ~~SCENE~~= }}	+	==Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP==
-	===Pyruvate kinase (PYK) from Trypanosoma brucei in the ~~presence~~ of ~~Magnesium~~ and F26BP~~===~~	+	<StructureSection load='4hyw' size='340' side='right' caption='[[4hyw]], [[Resolution\|resolution]] 2.35Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23999300}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4hyw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HYW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FDP:FRUCTOSE-2,6-DIPHOSPHATE'>FDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hyv\|4hyv]], [[3srk\|3srk]], [[3qv6\|3qv6]], [[3qv7\|3qv7]], [[3qv8\|3qv8]], [[3pp7\|3pp7]], [[3hqn\|3hqn]], [[3hqo\|3hqo]], [[3hqp\|3hqp]], [[3hqq\|3hqq]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYK1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5702 Trypanosoma brucei brucei])</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://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4hyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hyw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hyw RCSB], [http://www.ebi.ac.uk/pdbsum/4hyw PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The active site of pyruvate kinase (PYK) is located between the AC core of the enzyme and a mobile lid corresponding to domain B. Many PYK structures have already been determined, but the first `effector-only' structure and the first with PEP (the true natural substrate) are now reported for the enzyme from Trypanosoma brucei. PEP soaked into crystals of the enzyme with bound allosteric activator fructose 2,6-bisphosphate (F26BP) and Mg(2+) triggers a substantial 23 degrees rotation of the B domain `in crystallo', resulting in a partially closed active site. The interplay of side chains with Mg(2+) and PEP may explain the mechanism of the domain movement. Furthermore, it is apparent that when F26BP is present but PEP is absent Mg(2+) occupies a position that is distinct from the two canonical Mg(2+)-binding sites at the active site. This third site is adjacent to the active site and involves the same amino-acid side chains as in canonical site 1 but in altered orientations. Site 3 acts to sequester Mg(2+) in a `priming' position such that the enzyme is maintained in its R-state conformation. In this way, Mg(2+) cooperates with F26BP to ensure that the enzyme is in a conformation that has a high affinity for the substrate.

-	~~==About this Structure==~~	+	`In crystallo' substrate binding triggers major domain movements and reveals magnesium as a co-activator of Trypanosoma brucei pyruvate kinase.,Zhong W, Morgan HP, McNae IW, Michels PA, Fothergill-Gilmore LA, Walkinshaw MD Acta Crystallogr D Biol Crystallogr. 2013 Sep 1;69(Pt 9):1768-79. doi:, 10.1107/S0907444913013875. Epub 2013 Aug 17. PMID:23999300<ref>PMID:23999300</ref>
-	~~[[4hyw]] is~~ a ~~2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei~~ Trypanosoma brucei ~~brucei]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4HYW OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023999300</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Pyruvate kinase]]		[[Category: Pyruvate kinase]]
	[[Category: Trypanosoma brucei brucei]]		[[Category: Trypanosoma brucei brucei]]
-	[[Category: Fothergill-Gilmore, L A.]]	+	[[Category: Fothergill-Gilmore, L A]]
-	[[Category: McNae, I W.]]	+	[[Category: McNae, I W]]
-	[[Category: Michels, P A.M.]]	+	[[Category: Michels, P A.M]]
-	[[Category: Morgan, H P.]]	+	[[Category: Morgan, H P]]
-	[[Category: Walkinshaw, M D.]]	+	[[Category: Walkinshaw, M D]]
-	[[Category: Zhong, W.]]	+	[[Category: Zhong, W]]
	[[Category: 6-diphosphate binding]]		[[Category: 6-diphosphate binding]]
	[[Category: Allosteric regulation]]		[[Category: Allosteric regulation]]
Line 21:		Line 34:
	[[Category: Fructose-2]]		[[Category: Fructose-2]]
	[[Category: Phosphoenolpyruvate binding]]		[[Category: Phosphoenolpyruvate binding]]
-	[[Category: Pyruvate kinase]]
	[[Category: Tetramer]]		[[Category: Tetramer]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 05:24, 12 September 2013

OCA — Thu, 12 Sep 2013 05:24:07 GMT

←Older revision		Revision as of 05:24, 12 September 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4hyw\| PDB=4hyw \| SCENE= }}
		+	===Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP===
		+	{{ABSTRACT_PUBMED_23999300}}

-	~~The entry~~ 4hyw is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4hyw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HYW OCA].

-	~~Authors~~: ~~Zhong~~, W.~~, Morgan, H.P.,~~ McNae, I.W., Michels, P.A.M., ~~Fothergill-Gilmore, L~~.~~A.,~~ Walkinshaw, M.D.	+	==Reference==
-		+	<ref group="xtra">PMID:023999300</ref><references group="xtra"/><references/>
-	~~Description~~: Pyruvate kinase ~~(PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP~~	+	[[Category: Pyruvate kinase]]
		+	[[Category: Trypanosoma brucei brucei]]
		+	[[Category: Fothergill-Gilmore, L A.]]
		+	[[Category: McNae, I W.]]
		+	[[Category: Michels, P A.M.]]
		+	[[Category: Morgan, H P.]]
		+	[[Category: Walkinshaw, M D.]]
		+	[[Category: Zhong, W.]]
		+	[[Category: 6-diphosphate binding]]
		+	[[Category: Allosteric regulation]]
		+	[[Category: Cytosol]]
		+	[[Category: Fructose-2]]
		+	[[Category: Phosphoenolpyruvate binding]]
		+	[[Category: Pyruvate kinase]]
		+	[[Category: Tetramer]]
		+	[[Category: Transferase]]

OCA at 20:46, 12 December 2012

OCA — Wed, 12 Dec 2012 20:46:18 GMT

←Older revision		Revision as of 20:46, 12 December 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4hyw is ON HOLD	+	The entry 4hyw is ON HOLD until Paper Publication

	Authors: Zhong, W., Morgan, H.P., McNae, I.W., Michels, P.A.M., Fothergill-Gilmore, L.A., Walkinshaw, M.D.		Authors: Zhong, W., Morgan, H.P., McNae, I.W., Michels, P.A.M., Fothergill-Gilmore, L.A., Walkinshaw, M.D.

	Description: Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP		Description: Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP

OCA at 10:30, 5 December 2012

OCA — Wed, 05 Dec 2012 10:30:35 GMT

←Older revision		Revision as of 10:30, 5 December 2012
Line 5:		Line 5:
	Authors: Zhong, W., Morgan, H.P., McNae, I.W., Michels, P.A.M., Fothergill-Gilmore, L.A., Walkinshaw, M.D.		Authors: Zhong, W., Morgan, H.P., McNae, I.W., Michels, P.A.M., Fothergill-Gilmore, L.A., Walkinshaw, M.D.

-	Description: Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP.	+	Description: Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP

OCA: Protected "4hyw" [edit=sysop:move=sysop]

OCA — Wed, 21 Nov 2012 09:10:29 GMT

Protected "4hyw" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:10, 21 November 2012

OCA: New page: '''Unreleased structure''' The entry 4hyw is ON HOLD Authors: Zhong, W., Morgan, H.P., McNae, I.W., Michels, P.A.M., Fothergill-Gilmore, L.A., Walkinshaw, M.D. Description: Pyruvate ki...

OCA — Wed, 21 Nov 2012 09:10:28 GMT

New page: '''Unreleased structure''' The entry 4hyw is ON HOLD Authors: Zhong, W., Morgan, H.P., McNae, I.W., Michels, P.A.M., Fothergill-Gilmore, L.A., Walkinshaw, M.D. Description: Pyruvate ki...

New page

'''Unreleased structure'''

The entry 4hyw is ON HOLD

Authors: Zhong, W., Morgan, H.P., McNae, I.W., Michels, P.A.M., Fothergill-Gilmore, L.A., Walkinshaw, M.D.

Description: Pyruvate kinase (PYK) from Trypanosoma brucei in the presence of Magnesium and F26BP.