5xz6 - Revision history

OCA at 10:21, 27 March 2024

OCA — Wed, 27 Mar 2024 10:21:02 GMT

←Older revision		Revision as of 10:21, 27 March 2024
Line 3:		Line 3:
	<StructureSection load='5xz6' size='340' side='right'caption='[[5xz6]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='5xz6' size='340' side='right'caption='[[5xz6]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xz6]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp.~~_aureus_st228~~ Staphylococcus aureus subsp. aureus ~~st228~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZ6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5XZ6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xz6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XZ6 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID~~-~~ADENYLATE+ESTER'>ANP</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]] 2.7Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>pfkA, SAOUHSC_01807 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1074919 Staphylococcus aureus subsp. aureus ST228])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</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'>[https://proteopedia.org/fgij/fg.htm?mol=5xz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xz6 OCA], [https://pdbe.org/5xz6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xz6 RCSB], [https://www.ebi.ac.uk/pdbsum/5xz6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xz6 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=5xz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xz6 OCA], [~~http~~://pdbe.org/5xz6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5xz6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5xz6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5xz6 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PFKA_STAA8 PFKA_STAA8]] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_00339]	+	[https://www.uniprot.org/uniprot/PFKA_STAA8 PFKA_STAA8] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_00339]
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Most reported bacterial phosphofructokinases (Pfks) are tetramers that exhibit activity allosterically regulated via conformational changes between the R and T states. We report that the Pfk from Staphylococcus aureus NCTC 8325 ( SaPfk) exists as both an active tetramer and an inactive dimer in solution. Multiple effectors, including pH, ADP, ATP, and adenylyl-imidodiphosphate (AMP-PNP), cause equilibrium shifts from the tetramer to dimer, whereas the substrate F6P stabilizes SaPfk tetrameric assembly. Crystal structures of SaPfk in complex with different ligands and biochemical analysis reveal that the flexibility of the Gly150-Leu151 motif in helix alpha7 plays a role in tetramer-dimer conversion. Thus, we propose a molecular mechanism for allosteric regulation of bacterial Pfk via conversion between the tetramer and dimer in addition to the well-characterized R-state/T-state mechanism.	+

-	Structural Insights into the Regulation of Staphylococcus aureus Phosphofructokinase by Tetramer-Dimer Conversion.,Tian T, Wang C, Wu M, Zhang X, Zang J Biochemistry. 2018 Jul 24;57(29):4252-4262. doi: 10.1021/acs.biochem.8b00028., Epub 2018 Jul 9. PMID:29940104<ref>PMID:29940104</ref>	+	==See Also==
-		+	*[[Phosphofructokinase 3D structures\|Phosphofructokinase 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 5xz6" style~~=~~"background-color:#fffaf0;"></div>~~	+
-	~~== References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: 6-phosphofructokinase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Staphylococcus aureus subsp. aureus ~~st228~~]]	+	[[Category: Staphylococcus aureus subsp. aureus NCTC 8325]]
-	[[Category: Tian, T]]	+	[[Category: Tian T]]
-	[[Category: Wang~~, C L~~]]	+	[[Category: Wang CL]]
-	[[Category: Zang~~, J Y]]~~	+	[[Category: Zang JY]]
-	~~[[Category: Phosphofructokinase]]~~	+
-	~~[[Category: Staphylococcus aureus]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:23, 23 May 2019

OCA — Thu, 23 May 2019 07:23:37 GMT

←Older revision		Revision as of 07:23, 23 May 2019
Line 1:		Line 1:

	==Crystal Structure of Phosphofructokinase from Staphylococcus aureus in complex with adenylylimidodiphosphate, the ATP analogue==		==Crystal Structure of Phosphofructokinase from Staphylococcus aureus in complex with adenylylimidodiphosphate, the ATP analogue==
-	<StructureSection load='5xz6' size='340' side='right' caption='[[5xz6]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='5xz6' size='340' side='right'caption='[[5xz6]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xz6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZ6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xz6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_st228 Staphylococcus aureus subsp. aureus st228]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZ6 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pfkA, SAOUHSC_01807 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1074919 Staphylococcus aureus subsp. aureus ST228])</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='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=5xz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xz6 OCA], [http://pdbe.org/5xz6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xz6 RCSB], [http://www.ebi.ac.uk/pdbsum/5xz6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xz6 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=5xz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xz6 OCA], [http://pdbe.org/5xz6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xz6 RCSB], [http://www.ebi.ac.uk/pdbsum/5xz6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xz6 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~A0A0D1I869_STAAU A0A0D1I869_STAAU~~]] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_00339~~][SAAS:SAAS01078966~~]	+	[[http://www.uniprot.org/uniprot/PFKA_STAA8 PFKA_STAA8]] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_00339]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: 6-phosphofructokinase]]		[[Category: 6-phosphofructokinase]]
		+	[[Category: Large Structures]]
		+	[[Category: Staphylococcus aureus subsp. aureus st228]]
	[[Category: Tian, T]]		[[Category: Tian, T]]
	[[Category: Wang, C L]]		[[Category: Wang, C L]]

OCA at 15:10, 27 February 2019

OCA — Wed, 27 Feb 2019 15:10:40 GMT

←Older revision		Revision as of 15:10, 27 February 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5xz6 is ~~ON HOLD~~	+	==Crystal Structure of Phosphofructokinase from Staphylococcus aureus in complex with adenylylimidodiphosphate, the ATP analogue==
		+	<StructureSection load='5xz6' size='340' side='right' caption='[[5xz6]], [[Resolution\|resolution]] 2.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5xz6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZ6 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</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=5xz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xz6 OCA], [http://pdbe.org/5xz6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xz6 RCSB], [http://www.ebi.ac.uk/pdbsum/5xz6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xz6 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A0D1I869_STAAU A0A0D1I869_STAAU]] Catalyzes the phosphorylation of D-fructose 6-phosphate to fructose 1,6-bisphosphate by ATP, the first committing step of glycolysis.[HAMAP-Rule:MF_00339][SAAS:SAAS01078966]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Most reported bacterial phosphofructokinases (Pfks) are tetramers that exhibit activity allosterically regulated via conformational changes between the R and T states. We report that the Pfk from Staphylococcus aureus NCTC 8325 ( SaPfk) exists as both an active tetramer and an inactive dimer in solution. Multiple effectors, including pH, ADP, ATP, and adenylyl-imidodiphosphate (AMP-PNP), cause equilibrium shifts from the tetramer to dimer, whereas the substrate F6P stabilizes SaPfk tetrameric assembly. Crystal structures of SaPfk in complex with different ligands and biochemical analysis reveal that the flexibility of the Gly150-Leu151 motif in helix alpha7 plays a role in tetramer-dimer conversion. Thus, we propose a molecular mechanism for allosteric regulation of bacterial Pfk via conversion between the tetramer and dimer in addition to the well-characterized R-state/T-state mechanism.

-	~~Authors: Wang, C.L~~., Tian, T., ~~Zang~~, J.Y.	+	Structural Insights into the Regulation of Staphylococcus aureus Phosphofructokinase by Tetramer-Dimer Conversion.,Tian T, Wang C, Wu M, Zhang X, Zang J Biochemistry. 2018 Jul 24;57(29):4252-4262. doi: 10.1021/acs.biochem.8b00028., Epub 2018 Jul 9. PMID:29940104<ref>PMID:29940104</ref>

-	~~Description: Crystal Structure~~ of ~~Phosphofructokinase from Staphylococcus aureus in complex with adenylylimidodiphosphate,~~ the ~~ATP analogue~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Wang, C.L]]~~	+	<div class="pdbe-citations 5xz6" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Zang, J.Y~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 6-phosphofructokinase]]
	[[Category: Tian, T]]		[[Category: Tian, T]]
		+	[[Category: Wang, C L]]
		+	[[Category: Zang, J Y]]
		+	[[Category: Phosphofructokinase]]
		+	[[Category: Staphylococcus aureus]]
		+	[[Category: Transferase]]

OCA at 05:55, 30 January 2019

OCA — Wed, 30 Jan 2019 05:55:40 GMT

←Older revision		Revision as of 05:55, 30 January 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5xz6 is ON HOLD ~~until Paper Publication~~	+	The entry 5xz6 is ON HOLD

	Authors: Wang, C.L., Tian, T., Zang, J.Y.		Authors: Wang, C.L., Tian, T., Zang, J.Y.

OCA at 07:01, 10 January 2018

OCA — Wed, 10 Jan 2018 07:01:50 GMT

←Older revision		Revision as of 07:01, 10 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5xz6 is ON HOLD	+	The entry 5xz6 is ON HOLD until Paper Publication

	Authors: Wang, C.L., Tian, T., Zang, J.Y.		Authors: Wang, C.L., Tian, T., Zang, J.Y.

OCA: Protected "5xz6" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 15:56:39 GMT

Protected "5xz6" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:56, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5xz6 is ON HOLD Authors: Wang, C.L., Tian, T., Zang, J.Y. Description: Crystal Structure of Phosphofructokinase from Staphylococcus aureus in compl...

OCA — Wed, 27 Sep 2017 15:56:38 GMT

New page: '''Unreleased structure''' The entry 5xz6 is ON HOLD Authors: Wang, C.L., Tian, T., Zang, J.Y. Description: Crystal Structure of Phosphofructokinase from Staphylococcus aureus in compl...

New page

'''Unreleased structure'''

The entry 5xz6 is ON HOLD

Authors: Wang, C.L., Tian, T., Zang, J.Y.

Description: Crystal Structure of Phosphofructokinase from Staphylococcus aureus in complex with adenylylimidodiphosphate, the ATP analogue
[[Category: Unreleased Structures]]
[[Category: Wang, C.L]]
[[Category: Zang, J.Y]]
[[Category: Tian, T]]