6buq - Revision history

OCA at 14:50, 4 October 2023

OCA — Wed, 04 Oct 2023 14:50:36 GMT

←Older revision		Revision as of 14:50, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='6buq' size='340' side='right'caption='[[6buq]], [[Resolution\|resolution]] 1.88Å' scene=''>		<StructureSection load='6buq' size='340' side='right'caption='[[6buq]], [[Resolution\|resolution]] 1.88Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6buq]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Moota Moota~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BUQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6BUQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6buq]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Moorella_thermoacetica_ATCC_39073 Moorella thermoacetica ATCC 39073]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BUQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6BUQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR8:BARBITURIC+ACID'>BR8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PDO:1,3-PROPANDIOL'>PDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.88Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Moth_2120 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=264732 MOOTA])</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BR8:BARBITURIC+ACID'>BR8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PDO:1,3-PROPANDIOL'>PDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanuric_acid_amidohydrolase Cyanuric acid amidohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.15 3.5.2.15] </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=6buq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6buq OCA], [https://pdbe.org/6buq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6buq RCSB], [https://www.ebi.ac.uk/pdbsum/6buq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6buq 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=6buq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6buq OCA], [~~http~~://pdbe.org/6buq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6buq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6buq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6buq ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CAH_MOOTA CAH_MOOTA]] Responsible for the hydrolysis of cyanuric acid, an intermediate formed during catabolism of s-triazine based compounds in herbicides such as atrazine and polymers such as melamine. Catalyzes the hydrolytic opening of the s-triazine ring of cyanuric acid (2,4,6-trihydroxy-s-triazine) to yield carbon dioxide and carboxybiuret, which spontaneously decarboxylates to biuret.[HAMAP-Rule:MF_01989]<ref>PMID:19767460</ref> <ref>PMID:28235873</ref>	+	[https://www.uniprot.org/uniprot/CAH_MOOTA CAH_MOOTA] Responsible for the hydrolysis of cyanuric acid, an intermediate formed during catabolism of s-triazine based compounds in herbicides such as atrazine and polymers such as melamine. Catalyzes the hydrolytic opening of the s-triazine ring of cyanuric acid (2,4,6-trihydroxy-s-triazine) to yield carbon dioxide and carboxybiuret, which spontaneously decarboxylates to biuret.[HAMAP-Rule:MF_01989]<ref>PMID:19767460</ref> <ref>PMID:28235873</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cyanuric acid amidohydrolase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Moota~~]]	+	[[Category: Moorella thermoacetica ATCC 39073]]
-	[[Category: Aihara, H]]	+	[[Category: Aihara H]]
-	[[Category: Shi, K]]	+	[[Category: Shi K]]
-	~~[[Category: Cyanuric acid hydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 12:48, 25 December 2019

OCA — Wed, 25 Dec 2019 12:48:07 GMT

←Older revision		Revision as of 12:48, 25 December 2019
Line 3:		Line 3:
	<StructureSection load='6buq' size='340' side='right'caption='[[6buq]], [[Resolution\|resolution]] 1.88Å' scene=''>		<StructureSection load='6buq' size='340' side='right'caption='[[6buq]], [[Resolution\|resolution]] 1.88Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6buq]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BUQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BUQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6buq]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Moota Moota]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BUQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BUQ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR8:BARBITURIC+ACID'>BR8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PDO:1,3-PROPANDIOL'>PDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR8:BARBITURIC+ACID'>BR8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PDO:1,3-PROPANDIOL'>PDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Moth_2120 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=264732 MOOTA])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanuric_acid_amidohydrolase Cyanuric acid amidohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.15 3.5.2.15] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanuric_acid_amidohydrolase Cyanuric acid amidohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.15 3.5.2.15] </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=6buq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6buq OCA], [http://pdbe.org/6buq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6buq RCSB], [http://www.ebi.ac.uk/pdbsum/6buq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6buq 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=6buq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6buq OCA], [http://pdbe.org/6buq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6buq RCSB], [http://www.ebi.ac.uk/pdbsum/6buq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6buq ProSAT]</span></td></tr>
Line 10:		Line 11:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/CAH_MOOTA CAH_MOOTA]] Responsible for the hydrolysis of cyanuric acid, an intermediate formed during catabolism of s-triazine based compounds in herbicides such as atrazine and polymers such as melamine. Catalyzes the hydrolytic opening of the s-triazine ring of cyanuric acid (2,4,6-trihydroxy-s-triazine) to yield carbon dioxide and carboxybiuret, which spontaneously decarboxylates to biuret.[HAMAP-Rule:MF_01989]<ref>PMID:19767460</ref> <ref>PMID:28235873</ref>		[[http://www.uniprot.org/uniprot/CAH_MOOTA CAH_MOOTA]] Responsible for the hydrolysis of cyanuric acid, an intermediate formed during catabolism of s-triazine based compounds in herbicides such as atrazine and polymers such as melamine. Catalyzes the hydrolytic opening of the s-triazine ring of cyanuric acid (2,4,6-trihydroxy-s-triazine) to yield carbon dioxide and carboxybiuret, which spontaneously decarboxylates to biuret.[HAMAP-Rule:MF_01989]<ref>PMID:19767460</ref> <ref>PMID:28235873</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	An ancient enzyme family responsible for the catabolism of the prebiotic chemical cyanuric acid (1,3,5-triazine-2,4,6-triol) was recently discovered and is undergoing proliferation in the modern world due to industrial synthesis and dissemination of 1,3,5-triazine compounds. Cyanuric acid has a highly stabilized ring system such that bacteria require a unique enzyme with a novel fold and subtle active site construction to open the ring. Each cyanuric acid hydrolase monomer consists of three isostructural domains that coordinate and activate the three-fold symmetric substrate cyanuric acid for ring opening. We have now solved a series of X-ray structures of an engineered, thermostable cyanuric acid ring-opening enzyme at 1.51 ~ 2.25 A resolution, including various complexes with the substrate, a tight-binding inhibitor, or an analog of the reaction intermediate. These structures reveal asymmetric interactions between the enzyme and bound ligands, a metal ion binding coupled to conformational changes and substrate binding important for enzyme stability, and distinct roles of the isostructural domains of the enzyme. The multiple conformations of the enzyme observed across a series of structures and corroborating biochemical data suggest importance of the structural dynamics in facilitating the substrate entry and the ring-opening reaction, catalyzed by a conserved Ser-Lys dyad.
		+
		+	Crystal structures of Moorella thermoacetica cyanuric acid hydrolase reveal conformational flexibility and asymmetry important for catalysis.,Shi K, Cho S, Aukema KG, Lee T, Bera AK, Seffernick JL, Wackett LP, Aihara H PLoS One. 2019 Jun 10;14(6):e0216979. doi: 10.1371/journal.pone.0216979., eCollection 2019. PMID:31181074<ref>PMID:31181074</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6buq" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 16:		Line 26:
	[[Category: Cyanuric acid amidohydrolase]]		[[Category: Cyanuric acid amidohydrolase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Moota]]
	[[Category: Aihara, H]]		[[Category: Aihara, H]]
	[[Category: Shi, K]]		[[Category: Shi, K]]
	[[Category: Cyanuric acid hydrolase]]		[[Category: Cyanuric acid hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 05:28, 12 June 2019

OCA — Wed, 12 Jun 2019 05:28:45 GMT

←Older revision		Revision as of 05:28, 12 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6buq is ~~ON HOLD until Jun 10 2020~~	+	==Crystal structures of cyanuric acid hydrolase from Moorella thermoacetica complexed with barbituric acid==
-		+	<StructureSection load='6buq' size='340' side='right'caption='[[6buq]], [[Resolution\|resolution]] 1.88Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6buq]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BUQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BUQ FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR8:BARBITURIC+ACID'>BR8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PDO:1,3-PROPANDIOL'>PDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanuric_acid_amidohydrolase Cyanuric acid amidohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.15 3.5.2.15] </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=6buq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6buq OCA], [http://pdbe.org/6buq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6buq RCSB], [http://www.ebi.ac.uk/pdbsum/6buq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6buq ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CAH_MOOTA CAH_MOOTA]] Responsible for the hydrolysis of cyanuric acid, an intermediate formed during catabolism of s-triazine based compounds in herbicides such as atrazine and polymers such as melamine. Catalyzes the hydrolytic opening of the s-triazine ring of cyanuric acid (2,4,6-trihydroxy-s-triazine) to yield carbon dioxide and carboxybiuret, which spontaneously decarboxylates to biuret.[HAMAP-Rule:MF_01989]<ref>PMID:19767460</ref> <ref>PMID:28235873</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cyanuric acid amidohydrolase]]
		+	[[Category: Large Structures]]
		+	[[Category: Aihara, H]]
		+	[[Category: Shi, K]]
		+	[[Category: Cyanuric acid hydrolase]]
		+	[[Category: Hydrolase]]

OCA at 04:53, 21 February 2019

OCA — Thu, 21 Feb 2019 04:53:31 GMT

←Older revision		Revision as of 04:53, 21 February 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6buq is ON HOLD until ~~Mar 11~~ 2020	+	The entry 6buq is ON HOLD until Jun 10 2020

	Authors:		Authors:

OCA at 18:26, 2 December 2018

OCA — Sun, 02 Dec 2018 18:26:09 GMT

←Older revision		Revision as of 18:26, 2 December 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6buq is ON HOLD until ~~Paper Publication~~	+	The entry 6buq is ON HOLD until Mar 11 2020

	Authors:		Authors:

OCA at 05:40, 17 January 2018

OCA — Wed, 17 Jan 2018 05:40:10 GMT

←Older revision		Revision as of 05:40, 17 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 20 Dec 2017 05:02:13 GMT

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

←Older revision

Revision as of 05:02, 20 December 2017

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

OCA — Wed, 20 Dec 2017 05:02:12 GMT

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

New page

'''Unreleased structure'''

The entry 6buq is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]