6sy7 - Revision history

OCA at 12:50, 24 January 2024

OCA — Wed, 24 Jan 2024 12:50:12 GMT

←Older revision		Revision as of 12:50, 24 January 2024
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	<StructureSection load='6sy7' size='340' side='right'caption='[[6sy7]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='6sy7' size='340' side='right'caption='[[6sy7]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6sy7]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SY7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6SY7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6sy7]] is a 8 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=6SY7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6SY7 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene~~>, ~~<scene name='pdbligand=BNZ:BENZENE'>BNZ</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.75Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http:/~~/~~en.wikipedia.org/wiki/6-phosphofructokinase 6-phosphofructokinase]~~, ~~with EC number [http~~:/~~/www.brenda-enzymes.info/php/result_flat.php4?ecno~~=~~2.7.1.11 2.7.1.11]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=BNZ:BENZENE'>BNZ</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=6sy7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sy7 OCA], [~~http~~://pdbe.org/6sy7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6sy7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6sy7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6sy7 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=6sy7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sy7 OCA], [https://pdbe.org/6sy7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6sy7 RCSB], [https://www.ebi.ac.uk/pdbsum/6sy7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6sy7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PFKA_TRYBB PFKA_TRYBB]] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_03186]	+	[https://www.uniprot.org/uniprot/PFKA_TRYBB PFKA_TRYBB] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_03186]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6sy7" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6sy7" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phosphofructokinase 3D structures\|Phosphofructokinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: 6-phosphofructokinase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~McNae, I W~~]]	+	[[Category: Trypanosoma brucei brucei]]
-	[[Category: ~~Vasquez-Valdivieso, M G~~]]	+	[[Category: McNae IW]]
-	[[Category: ~~Walkinshaw, M D~~]]	+	[[Category: Vasquez-Valdivieso MG]]
-	[[Category: ~~Allostery]]~~	+	[[Category: Walkinshaw MD]]
-	~~[[Category: Amp]]~~	+
-	~~[[Category: Glycolysis]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:17, 25 December 2019

OCA — Wed, 25 Dec 2019 09:17:59 GMT

←Older revision		Revision as of 09:17, 25 December 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6sy7 is ~~ON HOLD~~	+	==Structure of Trypanosome Brucei Phosphofructokinase in complex with AMP.==
		+	<StructureSection load='6sy7' size='340' side='right'caption='[[6sy7]], [[Resolution\|resolution]] 2.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6sy7]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SY7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SY7 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=BNZ:BENZENE'>BNZ</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/6-phosphofructokinase 6-phosphofructokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.11 2.7.1.11] </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=6sy7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sy7 OCA], [http://pdbe.org/6sy7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sy7 RCSB], [http://www.ebi.ac.uk/pdbsum/6sy7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sy7 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PFKA_TRYBB PFKA_TRYBB]] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_03186]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Trypanosomatids possess glycosome organelles that contain much of the glycolytic machinery, including phosphofructokinase (PFK). We present kinetic and structural data for PFK from three human pathogenic trypanosomatids, illustrating intriguing differences that may reflect evolutionary adaptations to differing ecological niches. The activity of Leishmania PFK - to a much larger extent than Trypanosoma PFK - is reliant on AMP for activity regulation, with 1mM AMP increasing the L. infantum PFK (LiPFK) kcat/K0.5 (F6P) value by 10-fold, compared to only a 1.3- and 1.4-fold increase for T. cruzi and T. brucei PFK, respectively. We also show that Leishmania PFK melts at a significantly lower (> 15 degrees C) temperature than Trypanosoma PFKs and that addition of either AMP or ATP result in a marked stabilisation of the protein. Sequence comparisons of Trypanosoma spp. and Leishmania spp. show that divergence of the two genera involved amino acid substitutions that occur in the enzyme's 'reaching arms' and 'embracing arms' that determine tetramer stability. The dramatic effects of AMP on Leishmania activity compared with the Trypanosoma PFKs may be explained by differences between the T to R equilibria for the two families, with the low melting Leishmania PFK favouring the flexible inactive T-state in the absence of AMP. Sequence comparisons along with the enzymatic and structural data presented here also suggest there was a loss of AMP-dependent regulation in Trypanosoma species rather than gain of this characteristic in Leishmania species and that AMP acts as a key regulator in Leishmania governing the balance between glycolysis and gluconeogenesis.

-	~~Authors: McNae, I.W~~., Vasquez-Valdivieso, M~~.G.~~, ~~Walkinshaw~~, M.D.	+	Kinetic and structural studies of Trypanosoma and Leishmania phosphofructokinases show evolutionary divergence and identify AMP as a switch regulating glycolysis versus gluconeogenesis.,Fernandes PM, Kinkead J, McNae IW, Vasquez-Valdivieso M, Wear MA, Michels PAM, Walkinshaw MD FEBS J. 2019 Dec 15. doi: 10.1111/febs.15177. PMID:31838765<ref>PMID:31838765</ref>

-	~~Description: Structure~~ of ~~Trypanosome Brucei Phosphofructokinase in complex with AMP~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Mcnae~~, I.W]]	+	<div class="pdbe-citations 6sy7" style="background-color:#fffaf0;"></div>
-	[[Category: Vasquez-Valdivieso, M.G]]	+	== References ==
-	[[Category: Walkinshaw, M.D]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 6-phosphofructokinase]]
		+	[[Category: Large Structures]]
		+	[[Category: McNae, I W]]
		+	[[Category: Vasquez-Valdivieso, M G]]
		+	[[Category: Walkinshaw, M D]]
		+	[[Category: Allostery]]
		+	[[Category: Amp]]
		+	[[Category: Glycolysis]]
		+	[[Category: Transferase]]

OCA: Protected "6sy7" [edit=sysop:move=sysop]

OCA — Thu, 10 Oct 2019 03:42:12 GMT

Protected "6sy7" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:42, 10 October 2019

OCA: New page: '''Unreleased structure''' The entry 6sy7 is ON HOLD Authors: McNae, I.W., Vasquez-Valdivieso, M.G., Walkinshaw, M.D. Description: Structure of Trypanosome Brucei Phosphofructokinase i...

OCA — Thu, 10 Oct 2019 03:42:10 GMT

New page: '''Unreleased structure''' The entry 6sy7 is ON HOLD Authors: McNae, I.W., Vasquez-Valdivieso, M.G., Walkinshaw, M.D. Description: Structure of Trypanosome Brucei Phosphofructokinase i...

New page

'''Unreleased structure'''

The entry 6sy7 is ON HOLD

Authors: McNae, I.W., Vasquez-Valdivieso, M.G., Walkinshaw, M.D.

Description: Structure of Trypanosome Brucei Phosphofructokinase in complex with AMP.
[[Category: Unreleased Structures]]
[[Category: Mcnae, I.W]]
[[Category: Vasquez-Valdivieso, M.G]]
[[Category: Walkinshaw, M.D]]