2y1t - Revision history

OCA at 10:43, 20 December 2023

OCA — Wed, 20 Dec 2023 10:43:46 GMT

←Older revision		Revision as of 10:43, 20 December 2023
Line 3:		Line 3:
	<StructureSection load='2y1t' size='340' side='right'caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2y1t' size='340' side='right'caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"vibrio_subtilis"_ehrenberg_1835 "vibrio~~ subtilis~~" ehrenberg 1835~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=DUD:DEOXYURIDINE~~-~~5-DIPHOSPHATE'>DUD</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]] 1.89Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23]~~ </~~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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [https://pdbe.org/2y1t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [https://www.ebi.ac.uk/pdbsum/2y1t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y1t 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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [https://pdbe.org/2y1t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [https://www.ebi.ac.uk/pdbsum/2y1t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y1t ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/YOSS_BACSU YOSS_BACSU]] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.	+	[https://www.uniprot.org/uniprot/YOSS_BACSU YOSS_BACSU] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibrio~~ subtilis ~~ehrenberg 1835~~]]	+	[[Category: Bacillus subtilis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: DUTP diphosphatase]]~~	+	[[Category: Fogg MJ]]
-	[[Category: Fogg~~, M J~~]]	+	[[Category: Garcia-Nafria J]]
-	[[Category: Garcia-Nafria, J]]	+	[[Category: Harkiolaki M]]
-	[[Category: Harkiolaki, M]]	+	[[Category: Persson R]]
-	[[Category: Persson, R]]	+	[[Category: Wilson KS]]
-	[[Category: Wilson~~, K S]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Phe-lid]]~~	+
-	~~[[Category: Spb prophage~~]]	+

OCA at 12:21, 27 April 2022

OCA — Wed, 27 Apr 2022 12:21:25 GMT

←Older revision		Revision as of 12:21, 27 April 2022
Line 3:		Line 3:
	<StructureSection load='2y1t' size='340' side='right'caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2y1t' size='340' side='right'caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [~~http~~://pdbe.org/2y1t PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2y1t PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2y1t 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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [https://pdbe.org/2y1t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [https://www.ebi.ac.uk/pdbsum/2y1t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y1t ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/YOSS_BACSU YOSS_BACSU]] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.	+	[[https://www.uniprot.org/uniprot/YOSS_BACSU YOSS_BACSU]] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 12:30, 22 July 2020

OCA — Wed, 22 Jul 2020 12:30:27 GMT

←Older revision		Revision as of 12:30, 22 July 2020
Line 1:		Line 1:

	==Bacillus subtilis prophage dUTPase in complex with dUDP==		==Bacillus subtilis prophage dUTPase in complex with dUDP==
-	<StructureSection load='2y1t' size='340' side='right' caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>	+	<StructureSection load='2y1t' size='340' side='right'caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [http://pdbe.org/2y1t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [http://www.ebi.ac.uk/pdbsum/2y1t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2y1t 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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [http://pdbe.org/2y1t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [http://www.ebi.ac.uk/pdbsum/2y1t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2y1t ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 22:

	==See Also==		==See Also==
-	*[[~~Deoxyuridine 5'-triphosphate nucleotidohydrolase~~\|~~Deoxyuridine 5'-triphosphate nucleotidohydrolase~~]]	+	*[[DUTPase 3D structures\|DUTPase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 28:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Vibrio subtilis ehrenberg 1835]]		[[Category: Vibrio subtilis ehrenberg 1835]]
		+	[[Category: Large Structures]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
	[[Category: Fogg, M J]]		[[Category: Fogg, M J]]

OCA at 09:07, 10 October 2018

OCA — Wed, 10 Oct 2018 09:07:51 GMT

←Older revision		Revision as of 09:07, 10 October 2018
Line 1:		Line 1:

-	==~~BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP~~==	+	==Bacillus subtilis prophage dUTPase in complex with dUDP==
	<StructureSection load='2y1t' size='340' side='right' caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2y1t' size='340' side='right' caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"~~bacillus_globigii~~"~~_migula_1900~~ "~~bacillus globigii~~" ~~migula 1900~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>
Line 27:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus globigii migula 1900~~]]	+	[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
	[[Category: Fogg, M J]]		[[Category: Fogg, M J]]

OCA at 08:22, 5 August 2016

OCA — Fri, 05 Aug 2016 08:22:17 GMT

←Older revision		Revision as of 08:22, 5 August 2016
Line 1:		Line 1:
		+
	==BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP==		==BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP==
	<StructureSection load='2y1t' size='340' side='right' caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2y1t' size='340' side='right' caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_subtilis Bacillus subtilis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [http://www.ebi.ac.uk/pdbsum/2y1t PDBsum]</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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [http://pdbe.org/2y1t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [http://www.ebi.ac.uk/pdbsum/2y1t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2y1t ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2y1t" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~subtilis~~]]	+	[[Category: Bacillus globigii migula 1900]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
	[[Category: Fogg, M J]]		[[Category: Fogg, M J]]

OCA at 17:13, 25 December 2014

OCA — Thu, 25 Dec 2014 17:13:41 GMT

←Older revision		Revision as of 17:13, 25 December 2014
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	<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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [http://www.ebi.ac.uk/pdbsum/2y1t PDBsum]</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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [http://www.ebi.ac.uk/pdbsum/2y1t PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/YOSS_BACSU YOSS_BACSU]] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
-	[[Category: Fogg, M J.]]	+	[[Category: Fogg, M J]]
-	[[Category: Garcia-Nafria, J.]]	+	[[Category: Garcia-Nafria, J]]
-	[[Category: Harkiolaki, M.]]	+	[[Category: Harkiolaki, M]]
-	[[Category: Persson, R.]]	+	[[Category: Persson, R]]
-	[[Category: Wilson, K S.]]	+	[[Category: Wilson, K S]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Phe-lid]]		[[Category: Phe-lid]]
	[[Category: Spb prophage]]		[[Category: Spb prophage]]

OCA at 13:16, 22 October 2014

OCA — Wed, 22 Oct 2014 13:16:25 GMT

←Older revision		Revision as of 13:16, 22 October 2014
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-	[[~~Image:~~2y1t.~~png~~\|~~left~~\|~~200px~~]]	+	==BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP==
		+	<StructureSection load='2y1t' size='340' side='right' caption='[[2y1t]], [[Resolution\|resolution]] 1.89Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y1T FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xy3\|2xy3]], [[2xx6\|2xx6]], [[2baz\|2baz]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </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=2y1t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y1t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y1t RCSB], [http://www.ebi.ac.uk/pdbsum/2y1t PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	dUTPases are housekeeping enzymes which catalyse the hydrolysis of dUTP to dUMP in an ion-dependent manner. Bacillus subtilis has both a genomic and an SPbeta prophage homotrimeric dUTPase. Here, structure determination of the prophage apoenzyme and of its complexes with dUDP and dUpNHpp-Mg(2+) is described at 1.75, 1.9 and 2.55 A resolution, respectively. The C-terminal extension, which carries the conserved motif V, is disordered in all three structures. Unlike all other trimeric dUTPases for which structures are available, with the exception of the Bacillus genomic enzyme, the aromatic residue covering the uridine and acting as the Phe-lid is close to motif III in the sequence rather than in motif V. This is in spite of the presence of an aromatic amino acid at the usual Phe-lid position in motif V. The alternative position of the Phe-lid requires a reconsideration of its role in the catalytic cycle of the enzyme. In the dUpNHpp-Mg(2+) complex a water can be seen at the position expected for nucleophilic attack on the alpha-phosphate, in spite of motif V being disordered. Differences in the active site between the free enzyme and the dUDP and dUpNHpp-Mg(2+) complexes shows that the triphosphate moiety needs to be in the gauche conformation to trigger the conformational changes that can be seen in both B. subtilis dUTPases.

-	~~{{STRUCTURE_2y1t\| PDB=2y1t \| SCENE= }}~~	+	The structure of Bacillus subtilis SPbeta prophage dUTPase and its complexes with two nucleotides.,Garcia-Nafria J, Harkiolaki M, Persson R, Fogg MJ, Wilson KS Acta Crystallogr D Biol Crystallogr. 2011 Mar;67(Pt 3):167-75. Epub 2011, Feb 15. PMID:21358047<ref>PMID:21358047</ref>

-	~~===BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21358047}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2y1t]] is~~ a ~~6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_subtilis Bacillus subtilis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA].~~	+

	==See Also==		==See Also==
	*[[Deoxyuridine 5'-triphosphate nucleotidohydrolase\|Deoxyuridine 5'-triphosphate nucleotidohydrolase]]		*[[Deoxyuridine 5'-triphosphate nucleotidohydrolase\|Deoxyuridine 5'-triphosphate nucleotidohydrolase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021358047<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]

OCA at 19:19, 20 October 2012

OCA — Sat, 20 Oct 2012 19:19:45 GMT

←Older revision		Revision as of 19:19, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[2y1t]] is a 6 chain structure ~~of [[Deoxyuridine 5'-triphosphate nucleotidohydrolase]]~~ with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA].	+	[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA].

	==See Also==		==See Also==

OCA at 06:59, 27 July 2012

OCA — Fri, 27 Jul 2012 06:59:51 GMT

←Older revision		Revision as of 06:59, 27 July 2012
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	[[Image:2y1t.png\|left\|200px]]		[[Image:2y1t.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2y1t", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2y1t\| PDB=2y1t \| SCENE= }}		{{STRUCTURE_2y1t\| PDB=2y1t \| SCENE= }}

	===BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP===		===BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21358047}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21358047 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21358047}}		{{ABSTRACT_PUBMED_21358047}}

	==About this Structure==		==About this Structure==
-	[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA].	+	[[2y1t]] is a 6 chain structure of [[Deoxyuridine 5'-triphosphate nucleotidohydrolase]] with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA].
		+
		+	==See Also==
		+	*[[Deoxyuridine 5'-triphosphate nucleotidohydrolase\|Deoxyuridine 5'-triphosphate nucleotidohydrolase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21358047~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021358047</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
Line 30:		Line 22:
	[[Category: Persson, R.]]		[[Category: Persson, R.]]
	[[Category: Wilson, K S.]]		[[Category: Wilson, K S.]]
		+	[[Category: Hydrolase]]
		+	[[Category: Phe-lid]]
		+	[[Category: Spb prophage]]

OCA at 06:20, 23 March 2011

OCA — Wed, 23 Mar 2011 06:20:11 GMT

←Older revision		Revision as of 06:20, 23 March 2011
Line 1:		Line 1:
-	[[Image:2y1t.~~jpg~~\|left\|200px]]	+	[[Image:2y1t.png\|left\|200px]]

	<!--		<!--
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	===BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP===		===BACILLUS SUBTILIS PROPHAGE DUTPASE IN COMPLEX WITH DUDP===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21358047}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21358047 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21358047}}

	==About this Structure==		==About this Structure==
	[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA].		[[2y1t]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y1T OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21358047</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]