3c2t - Revision history

OCA at 09:32, 21 February 2024

OCA — Wed, 21 Feb 2024 09:32:37 GMT

←Older revision		Revision as of 09:32, 21 February 2024
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	<StructureSection load='3c2t' size='340' side='right'caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3c2t' size='340' side='right'caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Chlorella_virus_il-3a~~ Chlorella virus ~~il-3a~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3C2T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Paramecium_bursaria_Chlorella_virus_IL3A Paramecium bursaria Chlorella virus IL3A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C2T 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>~~, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 3Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[3c3i\|3c3i]]</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>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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'>[https://proteopedia.org/fgij/fg.htm?mol=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [https://pdbe.org/3c2t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [https://www.ebi.ac.uk/pdbsum/3c2t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2t 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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [~~http~~://pdbe.org/3c2t PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3c2t PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2t ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5I3E5_PBCVI Q5I3E5_PBCVI]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3c2t ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3c2t ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The 141-amino-acid deoxyuridine triphosphatase (dUTPase) from the algal Chlorella virus IL-3A and its Glu81Ser/Thr84Arg-mutant derivative Mu-22 were crystallized using the hanging-drop vapor-diffusion method at 298 K with polyethylene glycol as the precipitant. An apo IL-3A dUTPase with an amino-terminal T7 epitope tag and a carboxy-terminal histidine tag yielded cubic P2(1)3 crystals with unit-cell parameter a = 106.65 A. In the presence of dUDP, the enzyme produced thin stacked orthorhombic P222 crystals with unit-cell parameters a = 81.0, b = 96.2, c = 132.8 A. T7-histidine-tagged Mu-22 dUTPase formed thin stacked rectangular crystals. Amino-terminal histidine-tagged dUTPases did not crystallize but formed aggregates. Glycyl-seryl-tagged dUTPases yielded cubic P2(1)3 IL-3A crystals with unit-cell parameter a = 105.68 A and hexagonal P6(3) Mu-22 crystals with unit-cell parameters a = 132.07, c = 53.45 A, gamma = 120 degrees . Owing to the Thr84Arg mutation, Mu-22 dUTPase had different monomer-to-monomer interactions to those of IL-3A dUTPase.
-
-	Crystallization and crystal-packing studies of Chlorella virus deoxyuridine triphosphatase.,Homma K, Moriyama H Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Oct 1;65(Pt, 10):1030-4. Epub 2009 Sep 25. PMID:19851015<ref>PMID:19851015</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3c2t" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[DUTPase 3D structures\|DUTPase 3D structures]]		*[[DUTPase 3D structures\|DUTPase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Chlorella virus il-3a]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~DUTP diphosphatase~~]]	+	[[Category: Paramecium bursaria Chlorella virus IL3A]]
-	[[Category: Etten~~, L V.J~~]]	+	[[Category: Etten LVJ]]
-	[[Category: Homma, K]]	+	[[Category: Homma K]]
-	[[Category: Moriyama, H]]	+	[[Category: Moriyama H]]
-	[[Category: Yamanishi, M]]	+	[[Category: Yamanishi M]]
-	[[Category: Zhang, Y]]	+	[[Category: Zhang Y]]
-	~~[[Category: Dutpase chlorella virus]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 10:23, 12 August 2020

OCA — Wed, 12 Aug 2020 10:23:40 GMT

←Older revision		Revision as of 10:23, 12 August 2020
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	==Evolution of chlorella virus dUTPase==		==Evolution of chlorella virus dUTPase==
-	<StructureSection load='3c2t' size='340' side='right' caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='3c2t' size='340' side='right'caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlorella_virus_il-3a Chlorella virus il-3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3C2T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlorella_virus_il-3a Chlorella virus il-3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3C2T 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>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://pdbe.org/3c2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2t 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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://pdbe.org/3c2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2t ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[~~Deoxyuridine 5'-triphosphate nucleotidohydrolase~~\|~~Deoxyuridine 5'-triphosphate nucleotidohydrolase~~]]	+	*[[DUTPase 3D structures\|DUTPase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Chlorella virus il-3a]]		[[Category: Chlorella virus il-3a]]
		+	[[Category: Large Structures]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
	[[Category: Etten, L V.J]]		[[Category: Etten, L V.J]]

OCA at 13:57, 7 November 2018

OCA — Wed, 07 Nov 2018 13:57:57 GMT

←Older revision		Revision as of 13:57, 7 November 2018
Line 1:		Line 1:
		+
	==Evolution of chlorella virus dUTPase==		==Evolution of chlorella virus dUTPase==
	<StructureSection load='3c2t' size='340' side='right' caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3c2t' size='340' side='right' caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://pdbe.org/3c2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t 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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://pdbe.org/3c2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2t ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c2/3c2t_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c2/3c2t_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 17:51, 9 February 2016

OCA — Tue, 09 Feb 2016 17:51:40 GMT

←Older revision		Revision as of 17:51, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3c2t' size='340' side='right' caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3c2t' size='340' side='right' caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella~~ virus ~~il3a~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlorella_virus_il-3a Chlorella virus il-3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2T 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>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t 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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://pdbe.org/3c2t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 16:		Line 16:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3c2t ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 26:
	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 3c2t" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Paramecium bursaria chlorella~~ virus ~~il3a~~]]	+	[[Category: Chlorella virus il-3a]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
	[[Category: Etten, L V.J]]		[[Category: Etten, L V.J]]

OCA at 10:50, 20 January 2015

OCA — Tue, 20 Jan 2015 10:50:03 GMT

←Older revision		Revision as of 10:50, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2T FirstGlance]. <br>		<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2T FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><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>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</td></tr>
-	<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t 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=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Paramecium bursaria chlorella virus il3a]]		[[Category: Paramecium bursaria chlorella virus il3a]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
-	[[Category: Etten, L V.J.]]	+	[[Category: Etten, L V.J]]
-	[[Category: Homma, K.]]	+	[[Category: Homma, K]]
-	[[Category: Moriyama, H.]]	+	[[Category: Moriyama, H]]
-	[[Category: Yamanishi, M.]]	+	[[Category: Yamanishi, M]]
-	[[Category: Zhang, Y.]]	+	[[Category: Zhang, Y]]
	[[Category: Dutpase chlorella virus]]		[[Category: Dutpase chlorella virus]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 09:16, 29 September 2014

OCA — Mon, 29 Sep 2014 09:16:27 GMT

←Older revision		Revision as of 09:16, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3c2t.~~png~~\|~~left~~\|200px]]	+	==Evolution of chlorella virus dUTPase==
		+	<StructureSection load='3c2t' size='340' side='right' caption='[[3c2t]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2T FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DUD:DEOXYURIDINE-5-DIPHOSPHATE'>DUD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c3i\|3c3i]]</td></tr>
		+	<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3c2t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2t RCSB], [http://www.ebi.ac.uk/pdbsum/3c2t PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c2/3c2t_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The 141-amino-acid deoxyuridine triphosphatase (dUTPase) from the algal Chlorella virus IL-3A and its Glu81Ser/Thr84Arg-mutant derivative Mu-22 were crystallized using the hanging-drop vapor-diffusion method at 298 K with polyethylene glycol as the precipitant. An apo IL-3A dUTPase with an amino-terminal T7 epitope tag and a carboxy-terminal histidine tag yielded cubic P2(1)3 crystals with unit-cell parameter a = 106.65 A. In the presence of dUDP, the enzyme produced thin stacked orthorhombic P222 crystals with unit-cell parameters a = 81.0, b = 96.2, c = 132.8 A. T7-histidine-tagged Mu-22 dUTPase formed thin stacked rectangular crystals. Amino-terminal histidine-tagged dUTPases did not crystallize but formed aggregates. Glycyl-seryl-tagged dUTPases yielded cubic P2(1)3 IL-3A crystals with unit-cell parameter a = 105.68 A and hexagonal P6(3) Mu-22 crystals with unit-cell parameters a = 132.07, c = 53.45 A, gamma = 120 degrees . Owing to the Thr84Arg mutation, Mu-22 dUTPase had different monomer-to-monomer interactions to those of IL-3A dUTPase.

-	~~{{STRUCTURE_3c2t\| PDB=3c2t \| SCENE= }}~~	+	Crystallization and crystal-packing studies of Chlorella virus deoxyuridine triphosphatase.,Homma K, Moriyama H Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Oct 1;65(Pt, 10):1030-4. Epub 2009 Sep 25. PMID:19851015<ref>PMID:19851015</ref>

-	~~===Evolution~~ of ~~chlorella virus dUTPase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19851015}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3c2t]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T 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:019851015<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Paramecium bursaria chlorella virus il3a]]		[[Category: Paramecium bursaria chlorella virus il3a]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]

OCA at 14:38, 20 October 2012

OCA — Sat, 20 Oct 2012 14:38:04 GMT

←Older revision		Revision as of 14:38, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3c2t]] is a 2 chain structure ~~of [[Deoxyuridine 5'-triphosphate nucleotidohydrolase]]~~ with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA].	+	[[3c2t]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA].

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

OCA: Protected "3c2t" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 15:45:42 GMT

Protected "3c2t" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:45, 26 July 2012

OCA at 15:45, 26 July 2012

OCA — Thu, 26 Jul 2012 15:45:40 GMT

←Older revision		Revision as of 15:45, 26 July 2012
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-	{{Seed}}
	[[Image:3c2t.png\|left\|200px]]		[[Image:3c2t.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3c2t", 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_3c2t\| PDB=3c2t \| SCENE= }}		{{STRUCTURE_3c2t\| PDB=3c2t \| SCENE= }}

	===Evolution of chlorella virus dUTPase===		===Evolution of chlorella virus dUTPase===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19851015}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19851015 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19851015}}		{{ABSTRACT_PUBMED_19851015}}

	==About this Structure==		==About this Structure==
-	~~3C2T~~ is a 2 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA].	+	[[3c2t]] is a 2 chain structure of [[Deoxyuridine 5'-triphosphate nucleotidohydrolase]] with sequence from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA].
		+
		+	==See Also==
		+	*[[Deoxyuridine 5'-triphosphate nucleotidohydrolase\|Deoxyuridine 5'-triphosphate nucleotidohydrolase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19851015~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019851015</ref><references group="xtra"/>
	[[Category: Paramecium bursaria chlorella virus il3a]]		[[Category: Paramecium bursaria chlorella virus il3a]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
Line 33:		Line 24:
	[[Category: Dutpase chlorella virus]]		[[Category: Dutpase chlorella virus]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 18 20:38:27 2009''

OCA at 18:38, 18 November 2009

OCA — Wed, 18 Nov 2009 18:38:28 GMT

←Older revision		Revision as of 18:38, 18 November 2009
Line 12:		Line 12:
	===Evolution of chlorella virus dUTPase===		===Evolution of chlorella virus dUTPase===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19851015}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19851015 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19851015}}

	==About this Structure==		==About this Structure==
	3C2T is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA].		3C2T is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Paramecium_bursaria_chlorella_virus_il3a Paramecium bursaria chlorella virus il3a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2T OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19851015</ref><references group="xtra"/>
	[[Category: Paramecium bursaria chlorella virus il3a]]		[[Category: Paramecium bursaria chlorella virus il3a]]
	[[Category: DUTP diphosphatase]]		[[Category: DUTP diphosphatase]]
Line 25:		Line 34:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 18 20:16:28 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 18 20:38:27 2009''