6l0k - Revision history

OCA at 10:48, 22 November 2023

OCA — Wed, 22 Nov 2023 10:48:06 GMT

←Older revision		Revision as of 10:48, 22 November 2023
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	<StructureSection load='6l0k' size='340' side='right'caption='[[6l0k]], [[Resolution\|resolution]] 3.30Å' scene=''>		<StructureSection load='6l0k' size='340' side='right'caption='[[6l0k]], [[Resolution\|resolution]] 3.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6l0k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L0K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6L0K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6l0k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L0K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6L0K FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=LMR:(2S)~~-~~2-HYDROXYBUTANEDIOIC+ACID'>LMR</scene>~~, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 3.3Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene>, <scene name='pdbligand=LMR:(2S)-2-HYDROXYBUTANEDIOIC+ACID'>LMR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;~~'>~~[[6l0a\|6l0a]], [[6l0b\|6l0b]], [[6l0f\|6l0f]], [[6l0g\|6l0g]], [[6l0h\|6l0h]], [[6l0i\|6l0i]], [[6l0j\|6l0j]]~~</~~div~~>~~</td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">URA4~~, ~~YLR420W, L9931.1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])~~<~~/td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Dihydroorotase Dihydroorotase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.3 3.5.2.3]~~ </~~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=6l0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l0k OCA], [https://pdbe.org/6l0k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6l0k RCSB], [https://www.ebi.ac.uk/pdbsum/6l0k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6l0k 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=6l0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l0k OCA], [https://pdbe.org/6l0k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6l0k RCSB], [https://www.ebi.ac.uk/pdbsum/6l0k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6l0k ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PYRC_YEAST PYRC_YEAST]
	<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 6l0k" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6l0k" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dihydroorotase 3D structures\|Dihydroorotase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Baker's yeast]]
-	[[Category: Dihydroorotase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Chen, C J~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Guan, H H~~]]	+	[[Category: Chen CJ]]
-	[[Category: ~~Huang, C Y~~]]	+	[[Category: Guan HH]]
-	[[Category: Huang~~, Y H~~]]	+	[[Category: Huang CY]]
-	[[Category: ~~Dihydropyrimidinase dihydroorotase metalloenzyme]]~~	+	[[Category: Huang YH]]
-	~~[[Category: Hydrolase~~]]	+

OCA at 14:50, 17 June 2021

OCA — Thu, 17 Jun 2021 14:50:47 GMT

←Older revision		Revision as of 14:50, 17 June 2021
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	==Crystal structure of dihydroorotase in complex with malate at pH9 from Saccharomyces cerevisiae==		==Crystal structure of dihydroorotase in complex with malate at pH9 from Saccharomyces cerevisiae==
-	<StructureSection load='6l0k' size='340' side='right'caption='[[6l0k]]' scene=''>	+	<StructureSection load='6l0k' size='340' side='right'caption='[[6l0k]], [[Resolution\|resolution]] 3.30Å' 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=6L0K OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6L0K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6l0k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L0K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6L0K 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=6l0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l0k OCA], [~~http~~://pdbe.org/6l0k PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6l0k RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6l0k PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6l0k 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=LMR:(2S)-2-HYDROXYBUTANEDIOIC+ACID'>LMR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[6l0a\|6l0a]], [[6l0b\|6l0b]], [[6l0f\|6l0f]], [[6l0g\|6l0g]], [[6l0h\|6l0h]], [[6l0i\|6l0i]], [[6l0j\|6l0j]]</div></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">URA4, YLR420W, L9931.1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Dihydroorotase Dihydroorotase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.3 3.5.2.3] </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=6l0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l0k OCA], [https://pdbe.org/6l0k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6l0k RCSB], [https://www.ebi.ac.uk/pdbsum/6l0k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6l0k ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Dihydroorotase (DHOase) is the third enzyme in the de novo biosynthesis pathway of pyrimidine nucleotides and considered an attractive target for potential antimalarial, anticancer, and antipathogen chemotherapy. Whether the FDA-approved clinical drug 5-fluorouracil (5-FU) that is used to target the enzyme thymidylate synthase for anticancer therapy can also bind to DHOase remains unknown. Here, we report the crystal structures of DHOase from Saccharomyces cerevisiae (ScDHOase) complexed with malate, 5-FU, and 5-aminouracil (5-AU). ScDHOase shares structural similarity with Escherichia coli DHOase. We also characterized the binding of 5-FU and 5-AU to ScDHOase by using the fluorescence quenching method. These complexed structures revealed that residues Arg18, Asn43, Thr106, and Ala275 of ScDHOase were involved in the 5-FU (PDB entry 6L0B) and 5-AU binding (PDB entry 6L0F). Overall, these results provide structural insights that may facilitate the development of new inhibitors targeting DHOase and constitute the 5-FU and 5-AU interactomes for further clinical chemotherapies.
		+
		+	Structural basis for the interaction modes of dihydroorotase with the anticancer drugs 5-fluorouracil and 5-aminouracil.,Guan HH, Huang YH, Lin ES, Chen CJ, Huang CY Biochem Biophys Res Commun. 2021 Apr 30;551:33-37. doi:, 10.1016/j.bbrc.2021.03.001. Epub 2021 Mar 11. PMID:33714757<ref>PMID:33714757</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6l0k" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Baker's yeast]]
		+	[[Category: Dihydroorotase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen CJ]]	+	[[Category: Chen, C J]]
-	[[Category: Guan HH]]	+	[[Category: Guan, H H]]
-	[[Category: Huang CY]]	+	[[Category: Huang, C Y]]
-	[[Category: Huang YH]]	+	[[Category: Huang, Y H]]
		+	[[Category: Dihydropyrimidinase dihydroorotase metalloenzyme]]
		+	[[Category: Hydrolase]]

OCA at 07:42, 2 December 2020

OCA — Wed, 02 Dec 2020 07:42:38 GMT

←Older revision		Revision as of 07:42, 2 December 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6l0k is ~~ON HOLD until Dec 02 2021~~	+	==Crystal structure of dihydroorotase in complex with malate at pH9 from Saccharomyces cerevisiae==
-		+	<StructureSection load='6l0k' size='340' side='right'caption='[[6l0k]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L0K OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6L0K FirstGlance]. <br>
-	~~Description~~:	+	</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=6l0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l0k OCA], [http://pdbe.org/6l0k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6l0k RCSB], [http://www.ebi.ac.uk/pdbsum/6l0k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6l0k ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chen CJ]]
		+	[[Category: Guan HH]]
		+	[[Category: Huang CY]]
		+	[[Category: Huang YH]]

OCA at 05:06, 25 November 2020

OCA — Wed, 25 Nov 2020 05:06:51 GMT

←Older revision		Revision as of 05:06, 25 November 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l0k is ON HOLD until ~~Oct 31~~ 2021	+	The entry 6l0k is ON HOLD until Dec 02 2021

	Authors:		Authors:

OCA at 09:02, 26 August 2020

OCA — Wed, 26 Aug 2020 09:02:22 GMT

←Older revision		Revision as of 09:02, 26 August 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l0k is ON HOLD until ~~Paper Publication~~	+	The entry 6l0k is ON HOLD until Oct 31 2021

	Authors:		Authors:

OCA at 06:30, 1 January 2020

OCA — Wed, 01 Jan 2020 06:30:55 GMT

←Older revision		Revision as of 06:30, 1 January 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l0k is ON HOLD	+	The entry 6l0k is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6l0k" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 07:06:07 GMT

Protected "6l0k" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:06, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6l0k is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 07:06:05 GMT

New page: '''Unreleased structure''' The entry 6l0k is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6l0k is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]