5h9d - Revision history

OCA at 09:15, 20 March 2024

2024-03-20T09:15:27Z

←Older revision		Revision as of 09:15, 20 March 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q2FYG6_STAA8 Q2FYG6_STAA8]		[https://www.uniprot.org/uniprot/Q2FYG6_STAA8 Q2FYG6_STAA8]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	We report the first structure of heptaprenyl diphosphate synthase from Staphylococcus aureus (SaHepPPS), together with an investigation of its mechanism of action and inhibition. The protein is involved in the formation of menaquinone, a key electron transporter in many bacteria, including pathogens. SaHepPPS consists of a "catalytic " subunit (SaHepPPS-2) having two "DDXXD" motifs and a "regulatory" subunit (SaHepPPS-1) that lacks these motifs. High concentrations of the substrates, isopentenyl diphosphate and farnesyl diphosphate, inhibit the enzyme, which is also potently inhibited by bisphosphonates. The most active inhibitors (Ki approximately 200 nm) were N-alkyl analogues of zoledronate containing approximately C6 alkyl side chains. They were modestly active against S. aureus cell growth, and growth inhibition was partially "rescued" by the addition of menaquinone-7. Because SaHepPPS is essential for S. aureus cell growth, its structure is of interest in the context of the development of menaquinone biosynthesis inhibitors as potential antibiotic leads.
-
-	Structure, Function, and Inhibition of Staphylococcus aureus Heptaprenyl Diphosphate Synthase.,Desai J, Liu YL, Wei H, Liu W, Ko TP, Guo RT, Oldfield E ChemMedChem. 2016 Sep 6;11(17):1915-23. doi: 10.1002/cmdc.201600311. Epub 2016, Jul 26. PMID:27457559<ref>PMID:27457559</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5h9d" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:27, 9 August 2023

2023-08-09T07:27:51Z

←Older revision		Revision as of 07:27, 9 August 2023
Line 3:		Line 3:
	<StructureSection load='5h9d' size='340' side='right'caption='[[5h9d]], [[Resolution\|resolution]] 2.68Å' scene=''>		<StructureSection load='5h9d' size='340' side='right'caption='[[5h9d]], [[Resolution\|resolution]] 2.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h9d]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H9D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5H9D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h9d]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H9D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H9D FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.68Å</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=5h9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h9d OCA], [~~http~~://pdbe.org/5h9d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5h9d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5h9d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5h9d ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=5h9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h9d OCA], [https://pdbe.org/5h9d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h9d RCSB], [https://www.ebi.ac.uk/pdbsum/5h9d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h9d ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q2FYG6_STAA8 Q2FYG6_STAA8]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Chen, C C~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: ~~Guo, R T~~]]	+	[[Category: Chen CC]]
-	[[Category: ~~Ko, T P~~]]	+	[[Category: Guo RT]]
-	[[Category: ~~Liu, W D~~]]	+	[[Category: Ko TP]]
-	[[Category: ~~Wei, H L~~]]	+	[[Category: Liu WD]]
-	[[Category: ~~Zheng, Y Y~~]]	+	[[Category: Wei HL]]
-	[[Category: ~~Acidocalcisomal pyrophosphatase]]~~	+	[[Category: Zheng YY]]
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Substrate binding]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:55, 20 May 2020

2020-05-20T06:55:59Z

←Older revision		Revision as of 06:55, 20 May 2020
Line 1:		Line 1:

	==Crystal structure of Heptaprenyl Diphosphate Synthase from Staphylococcus aureus==		==Crystal structure of Heptaprenyl Diphosphate Synthase from Staphylococcus aureus==
-	<StructureSection load='5h9d' size='340' side='right' caption='[[5h9d]], [[Resolution\|resolution]] 2.68Å' scene=''>	+	<StructureSection load='5h9d' size='340' side='right'caption='[[5h9d]], [[Resolution\|resolution]] 2.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h9d]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H9D OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5H9D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h9d]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H9D OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5H9D FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=5h9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h9d OCA], [http://pdbe.org/5h9d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h9d RCSB], [http://www.ebi.ac.uk/pdbsum/5h9d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h9d 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=5h9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h9d OCA], [http://pdbe.org/5h9d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h9d RCSB], [http://www.ebi.ac.uk/pdbsum/5h9d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h9d ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Chen, C C]]		[[Category: Chen, C C]]
	[[Category: Guo, R T]]		[[Category: Guo, R T]]

OCA at 10:25, 3 August 2017

2017-08-03T10:25:16Z

←Older revision		Revision as of 10:25, 3 August 2017
Line 1:		Line 1:

-	==Crystal structure of ~~a prenyltransference~~==	+	==Crystal structure of Heptaprenyl Diphosphate Synthase from Staphylococcus aureus==
	<StructureSection load='5h9d' size='340' side='right' caption='[[5h9d]], [[Resolution\|resolution]] 2.68Å' scene=''>		<StructureSection load='5h9d' size='340' side='right' caption='[[5h9d]], [[Resolution\|resolution]] 2.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 7:		Line 7:
	<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=5h9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h9d OCA], [http://pdbe.org/5h9d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h9d RCSB], [http://www.ebi.ac.uk/pdbsum/5h9d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h9d 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=5h9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h9d OCA], [http://pdbe.org/5h9d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h9d RCSB], [http://www.ebi.ac.uk/pdbsum/5h9d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h9d ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We report the first structure of heptaprenyl diphosphate synthase from Staphylococcus aureus (SaHepPPS), together with an investigation of its mechanism of action and inhibition. The protein is involved in the formation of menaquinone, a key electron transporter in many bacteria, including pathogens. SaHepPPS consists of a "catalytic " subunit (SaHepPPS-2) having two "DDXXD" motifs and a "regulatory" subunit (SaHepPPS-1) that lacks these motifs. High concentrations of the substrates, isopentenyl diphosphate and farnesyl diphosphate, inhibit the enzyme, which is also potently inhibited by bisphosphonates. The most active inhibitors (Ki approximately 200 nm) were N-alkyl analogues of zoledronate containing approximately C6 alkyl side chains. They were modestly active against S. aureus cell growth, and growth inhibition was partially "rescued" by the addition of menaquinone-7. Because SaHepPPS is essential for S. aureus cell growth, its structure is of interest in the context of the development of menaquinone biosynthesis inhibitors as potential antibiotic leads.
		+
		+	Structure, Function, and Inhibition of Staphylococcus aureus Heptaprenyl Diphosphate Synthase.,Desai J, Liu YL, Wei H, Liu W, Ko TP, Guo RT, Oldfield E ChemMedChem. 2016 Sep 6;11(17):1915-23. doi: 10.1002/cmdc.201600311. Epub 2016, Jul 26. PMID:27457559<ref>PMID:27457559</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5h9d" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 16:23, 2 January 2017

2017-01-02T16:23:53Z

←Older revision		Revision as of 16:23, 2 January 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5h9d is ~~ON HOLD until Dec 28 2017~~	+	==Crystal structure of a prenyltransference==
-		+	<StructureSection load='5h9d' size='340' side='right' caption='[[5h9d]], [[Resolution\|resolution]] 2.68Å' scene=''>
-	~~Authors~~: ~~Wei, H~~.L.~~, Liu, W~~.D., ~~Zheng, Y~~.Y., Ko, T.P., ~~Chen, C~~.C., ~~Guo, R~~.T.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5h9d]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H9D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H9D FirstGlance]. <br>
-	~~Description: Crystal structure of a prenyltransference~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5h9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h9d OCA], [http://pdbe.org/5h9d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h9d RCSB], [http://www.ebi.ac.uk/pdbsum/5h9d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h9d ProSAT]</span></td></tr>
-	[[Category: Ko, T.P]]	+	</table>
-	[[Category: ~~Chen~~, ~~C.C~~]]	+	__TOC__
-	[[Category: Liu, W.D]]	+	</StructureSection>
-	[[Category: Wei, H.L]]	+	[[Category: Chen, C C]]
-	[[Category: ~~Guo~~, ~~R.T~~]]	+	[[Category: Guo, R T]]
-	[[Category: ~~Zheng, Y.Y~~]]	+	[[Category: Ko, T P]]
		+	[[Category: Liu, W D]]
		+	[[Category: Wei, H L]]
		+	[[Category: Zheng, Y Y]]
		+	[[Category: Acidocalcisomal pyrophosphatase]]
		+	[[Category: Metal-binding]]
		+	[[Category: Substrate binding]]
		+	[[Category: Transferase]]

OCA at 11:09, 20 June 2016

2016-06-20T11:09:01Z

←Older revision		Revision as of 11:09, 20 June 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5h9d is ON HOLD	+	The entry 5h9d is ON HOLD until Dec 28 2017

	Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T.		Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T.

OCA at 12:21, 2 March 2016

2016-03-02T12:21:18Z

←Older revision		Revision as of 12:21, 2 March 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5h9d is ON HOLD ~~until Dec 28 2017~~	+	The entry 5h9d is ON HOLD

	Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T.		Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T.

OCA at 15:08, 20 January 2016

2016-01-20T15:08:15Z

←Older revision		Revision as of 15:08, 20 January 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5h9d is ON HOLD	+	The entry 5h9d is ON HOLD until Dec 28 2017

	Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T.		Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T.

OCA: Protected "5h9d" [edit=sysop:move=sysop]

2016-01-07T10:20:45Z

Protected "5h9d" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:20, 7 January 2016

OCA: New page: '''Unreleased structure''' The entry 5h9d is ON HOLD Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T. Description: Crystal structure of a prenyltransference ...

2016-01-07T10:20:43Z

New page: '''Unreleased structure''' The entry 5h9d is ON HOLD Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T. Description: Crystal structure of a prenyltransference ...

New page

'''Unreleased structure'''

The entry 5h9d is ON HOLD

Authors: Wei, H.L., Liu, W.D., Zheng, Y.Y., Ko, T.P., Chen, C.C., Guo, R.T.

Description: Crystal structure of a prenyltransference
[[Category: Unreleased Structures]]
[[Category: Ko, T.P]]
[[Category: Chen, C.C]]
[[Category: Liu, W.D]]
[[Category: Wei, H.L]]
[[Category: Guo, R.T]]
[[Category: Zheng, Y.Y]]