4aoo - Revision history

OCA at 11:31, 20 December 2023

OCA — Wed, 20 Dec 2023 11:31:38 GMT

←Older revision		Revision as of 11:31, 20 December 2023
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	<StructureSection load='4aoo' size='340' side='right'caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4aoo' size='340' side='right'caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4AOO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4AOO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</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]] 2.3Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xcd\|2xcd]], [[2xce\|2xce]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [https://pdbe.org/4aoo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [https://www.ebi.ac.uk/pdbsum/4aoo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4aoo 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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [https://pdbe.org/4aoo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [https://www.ebi.ac.uk/pdbsum/4aoo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4aoo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/YNCF_BACSU YNCF_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 (By similarity).	+	[https://www.uniprot.org/uniprot/YNCF_BACSU YNCF_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 (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibrio~~ subtilis ~~ehrenberg 1835~~]]	+	[[Category: Bacillus subtilis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: DUTP diphosphatase]]~~	+	[[Category: Garcia-Nafria J]]
-	[[Category: Garcia-Nafria, J]]	+	[[Category: Harrison C]]
-	[[Category: Harrison, C]]	+	[[Category: Timm J]]
-	[[Category: Timm, J]]	+	[[Category: Turkenburg JP]]
-	[[Category: Turkenburg~~, J P~~]]	+	[[Category: Wilson KS]]
-	[[Category: Wilson~~, K S]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 05:41, 25 August 2022

OCA — Thu, 25 Aug 2022 05:41:06 GMT

←Older revision		Revision as of 05:41, 25 August 2022
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	<StructureSection load='4aoo' size='340' side='right'caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4aoo' size='340' side='right'caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4AOO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4AOO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xcd\|2xcd]], [[2xce\|2xce]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xcd\|2xcd]], [[2xce\|2xce]]</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~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [~~http~~://pdbe.org/4aoo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4aoo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4aoo 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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [https://pdbe.org/4aoo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [https://www.ebi.ac.uk/pdbsum/4aoo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4aoo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/YNCF_BACSU YNCF_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 (By similarity).	+	[[https://www.uniprot.org/uniprot/YNCF_BACSU YNCF_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 (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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: Garcia-Nafria, J]]		[[Category: Garcia-Nafria, J]]

OCA at 09:43, 6 March 2019

OCA — Wed, 06 Mar 2019 09:43:12 GMT

←Older revision		Revision as of 09:43, 6 March 2019
Line 1:		Line 1:

	==B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32==		==B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32==
-	<StructureSection load='4aoo' size='340' side='right' caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='4aoo' size='340' side='right'caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AOO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AOO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xcd\|2xcd]], [[2xce\|2xce]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xcd\|2xcd]], [[2xce\|2xce]]</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: Garcia-Nafria, J]]		[[Category: Garcia-Nafria, J]]

OCA at 23:51, 4 August 2016

OCA — Thu, 04 Aug 2016 23:51:02 GMT

←Older revision		Revision as of 23:51, 4 August 2016
Line 1:		Line 1:
		+
	==B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32==		==B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32==
	<StructureSection load='4aoo' size='340' side='right' caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4aoo' size='340' side='right' caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AOO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AOO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xcd\|2xcd]], [[2xce\|2xce]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xcd\|2xcd]], [[2xce\|2xce]]</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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [http://www.ebi.ac.uk/pdbsum/4aoo 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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [http://pdbe.org/4aoo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [http://www.ebi.ac.uk/pdbsum/4aoo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4aoo 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 4aoo" 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: Garcia-Nafria, J]]		[[Category: Garcia-Nafria, J]]

OCA at 20:53, 24 December 2014

OCA — Wed, 24 Dec 2014 20:53:13 GMT

←Older revision		Revision as of 20:53, 24 December 2014
Line 8:		Line 8:
	<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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [http://www.ebi.ac.uk/pdbsum/4aoo 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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [http://www.ebi.ac.uk/pdbsum/4aoo PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/YNCF_BACSU YNCF_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 (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 10:09, 21 December 2014

OCA — Sun, 21 Dec 2014 10:09:26 GMT

←Older revision		Revision as of 10:09, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4aoo\| PDB=4aoo \| SCENE= }}~~	+	==B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32==
-	===B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32===	+	<StructureSection load='4aoo' size='340' side='right' caption='[[4aoo]], [[Resolution\|resolution]] 2.30Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23897460}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4aoo]] is a 4 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=4AOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AOO FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUR:2-DEOXYURIDINE'>DUR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xcd\|2xcd]], [[2xce\|2xce]]</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=4aoo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4aoo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4aoo RCSB], [http://www.ebi.ac.uk/pdbsum/4aoo PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Homotrimeric dUTPases contain three active sites, each formed by five conserved sequence motifs originating from all three subunits. The essential fifth motif lies in a flexible C-terminal arm which becomes ordered during catalysis and is disordered in most crystal structures. Previously, it has been shown that the two Bacillus subtilis dUTPases, YncF and YosS, differ from their orthologues in the position in the sequence of the essential Phe-lid residue, which stacks against the uracil base, and in the conformation of the general base aspartate, which points away from the active site. Here, three structures of the complex of YncF with dU-PPi-Mg(2+) and the structure of YosS complexed with dUMP are reported. dU-PPi-Mg(2+) triggers the ordering of both the C-terminal arm and a loop (residues 18-26) which is uniquely disordered in the Bacillus dUTPases. The dUMP complex suggests two stages in substrate release. Limited proteolysis experiments allowed those complexes in which C-terminal cleavage is hindered and those in which it can be assumed to be ordered to be identified. The results lead to the suggestion that dUpNHpp is not a perfect substrate mimic, at least for the B. subtilis enzymes, and provide new insights into the mechanism of these two dUTPases in comparison to their orthologues. The enzyme mechanism is reviewed using the present and previous crystal structures as snapshots along the reaction coordinate.

-	~~==Function==~~	+	Tying down the arm in Bacillus dUTPase: structure and mechanism.,Garcia-Nafria J, Timm J, Harrison C, Turkenburg JP, Wilson KS Acta Crystallogr D Biol Crystallogr. 2013 Aug;69(Pt 8):1367-80. doi:, 10.1107/S090744491300735X. Epub 2013 Jul 13. PMID:23897460<ref>PMID:23897460</ref>
-	~~[[http://www.uniprot.org/uniprot/YNCF_BACSU YNCF_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~~ (~~By similarity~~).	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[4aoo]] is~~ a ~~4 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=4AOO OCA].~~	+	</div>

	==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:023897460</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
-	[[Category: Garcia-Nafria, J.]]	+	[[Category: Garcia-Nafria, J]]
-	[[Category: Harrison, C.]]	+	[[Category: Harrison, C]]
-	[[Category: Timm, J.]]	+	[[Category: Timm, J]]
-	[[Category: Turkenburg, J P.]]	+	[[Category: Turkenburg, J P]]
-	[[Category: Wilson, K S.]]	+	[[Category: Wilson, K S]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 19:29, 7 August 2013

OCA — Wed, 07 Aug 2013 19:29:41 GMT

←Older revision		Revision as of 19:29, 7 August 2013
Line 1:		Line 1:
	{{STRUCTURE_4aoo\| PDB=4aoo \| SCENE= }}		{{STRUCTURE_4aoo\| PDB=4aoo \| SCENE= }}
	===B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32===		===B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32===
		+	{{ABSTRACT_PUBMED_23897460}}

	==Function==		==Function==
Line 10:		Line 11:
	==See Also==		==See Also==
	*[[Deoxyuridine 5'-triphosphate nucleotidohydrolase\|Deoxyuridine 5'-triphosphate nucleotidohydrolase]]		*[[Deoxyuridine 5'-triphosphate nucleotidohydrolase\|Deoxyuridine 5'-triphosphate nucleotidohydrolase]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023897460</ref><references group="xtra"/><references/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]

OCA at 03:47, 1 August 2013

OCA — Thu, 01 Aug 2013 03:47:39 GMT

←Older revision		Revision as of 03:47, 1 August 2013
Line 7:		Line 7:
	==About this Structure==		==About this Structure==
	[[4aoo]] is a 4 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=4AOO OCA].		[[4aoo]] is a 4 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=4AOO OCA].
		+
		+	==See Also==
		+	*[[Deoxyuridine 5'-triphosphate nucleotidohydrolase\|Deoxyuridine 5'-triphosphate nucleotidohydrolase]]
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
Line 12:		Line 15:
	[[Category: Harrison, C.]]		[[Category: Harrison, C.]]
	[[Category: Timm, J.]]		[[Category: Timm, J.]]
-	[[Category: Turkenburg, J.]]	+	[[Category: Turkenburg, J P.]]
	[[Category: Wilson, K S.]]		[[Category: Wilson, K S.]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 20:30, 17 April 2013

OCA — Wed, 17 Apr 2013 20:30:32 GMT

←Older revision		Revision as of 20:30, 17 April 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4aoo\| PDB=4aoo \| SCENE= }}
		+	===B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32===

-	~~The entry 4aoo~~ is ~~ON HOLD~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/YNCF_BACSU YNCF_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 (By similarity).

-	~~Authors~~: Garcia-Nafria, J.~~, Timm, J.,~~ Harrison, C., Turkenburg, J., Wilson, K.S.	+	==About this Structure==
-		+	[[4aoo]] is a 4 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=4AOO OCA].
-	~~Description~~: ~~B. subtilis dUTPase YncF in complex with dU PPi and Mg in H32~~	+	[[Category: Bacillus subtilis]]
		+	[[Category: DUTP diphosphatase]]
		+	[[Category: Garcia-Nafria, J.]]
		+	[[Category: Harrison, C.]]
		+	[[Category: Timm, J.]]
		+	[[Category: Turkenburg, J.]]
		+	[[Category: Wilson, K S.]]
		+	[[Category: Hydrolase]]

OCA: Protected "4aoo" [edit=sysop:move=sysop]

OCA — Wed, 04 Apr 2012 05:41:10 GMT

Protected "4aoo" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:41, 4 April 2012