3eug - Revision history

OCA at 06:34, 6 September 2023

2023-09-06T06:34:57Z

←Older revision		Revision as of 06:34, 6 September 2023
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	<StructureSection load='3eug' size='340' side='right'caption='[[3eug]], [[Resolution\|resolution]] 1.43Å' scene=''>		<StructureSection load='3eug' size='340' side='right'caption='[[3eug]], [[Resolution\|resolution]] 1.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3eug]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Escherichia_coli_(strain_b)~~ Escherichia coli ~~(strain b)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EUG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3eug]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_B Escherichia coli B]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EUG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.43Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;'>[[1eug\|1eug]]~~, [[~~2eug~~\|~~2eug]], [[4eug\|4eug]], [[5eug\|5eug~~]]~~</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>UNG ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~37762 Escherichia coli (strain B)])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Uridine_nucleosidase Uridine nucleosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.3 3.2.2.3]~~ </~~span~~></td></tr>	+
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3eug FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eug OCA], [https://pdbe.org/3eug PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eug RCSB], [https://www.ebi.ac.uk/pdbsum/3eug PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eug 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=3eug FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eug OCA], [https://pdbe.org/3eug PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eug RCSB], [https://www.ebi.ac.uk/pdbsum/3eug PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eug ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/UNG_ECOLI UNG_ECOLI]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.[HAMAP-Rule:MF_00148]	+	[https://www.uniprot.org/uniprot/UNG_ECOLI UNG_ECOLI] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.[HAMAP-Rule:MF_00148]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</div>		</div>
	<div class="pdbe-citations 3eug" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3eug" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[DNA glycosylase 3D structures\|DNA glycosylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli B]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Uridine nucleosidase]]~~	+	[[Category: Drohat AC]]
-	[[Category: Drohat~~, A C~~]]	+	[[Category: Gilliland GL]]
-	[[Category: Gilliland~~, G L~~]]	+	[[Category: Jagadeesh J]]
-	[[Category: Jagadeesh, J]]	+	[[Category: Stivers JT]]
-	[[Category: Stivers~~, J T~~]]	+	[[Category: Tordova M]]
-	[[Category: Tordova, M]]	+	[[Category: Xiao G]]
-	[[Category: Xiao, G]]	+
-	~~[[Category: Glycosylase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 15:47, 3 November 2021

2021-11-03T15:47:02Z

←Older revision		Revision as of 15:47, 3 November 2021
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	==CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED==		==CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED==
-	<StructureSection load='3eug' size='340' side='right' caption='[[3eug]], [[Resolution\|resolution]] 1.43Å' scene=''>	+	<StructureSection load='3eug' size='340' side='right'caption='[[3eug]], [[Resolution\|resolution]] 1.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3eug]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Escherichia_coli_(strain_b) Escherichia coli (strain b)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3EUG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3eug]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_(strain_b) Escherichia coli (strain b)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EUG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eug\|1eug]], [[2eug\|2eug]], [[4eug\|4eug]], [[5eug\|5eug]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1eug\|1eug]], [[2eug\|2eug]], [[4eug\|4eug]], [[5eug\|5eug]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37762 Escherichia coli (strain B)])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37762 Escherichia coli (strain B)])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Uridine_nucleosidase Uridine nucleosidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.3 3.2.2.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Uridine_nucleosidase Uridine nucleosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.3 3.2.2.3] </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=3eug FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eug OCA], [~~http~~://pdbe.org/3eug PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3eug RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3eug PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3eug 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=3eug FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eug OCA], [https://pdbe.org/3eug PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eug RCSB], [https://www.ebi.ac.uk/pdbsum/3eug PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eug ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/UNG_ECOLI UNG_ECOLI]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.[HAMAP-Rule:MF_00148]	+	[[https://www.uniprot.org/uniprot/UNG_ECOLI UNG_ECOLI]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.[HAMAP-Rule:MF_00148]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Uridine nucleosidase]]		[[Category: Uridine nucleosidase]]
	[[Category: Drohat, A C]]		[[Category: Drohat, A C]]

OCA at 06:44, 14 March 2018

2018-03-14T06:44:57Z

←Older revision		Revision as of 06:44, 14 March 2018
Line 16:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eu/3eug_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eu/3eug_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>
Line 31:		Line 31:
	</div>		</div>
	<div class="pdbe-citations 3eug" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3eug" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[DNA glycosylase\|DNA glycosylase]]
-	*[[Uracil-DNA glycosylase\|Uracil-DNA glycosylase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 00:09, 5 August 2016

2016-08-05T00:09:58Z

←Older revision		Revision as of 00:09, 5 August 2016
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED==		==CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED==
	<StructureSection load='3eug' size='340' side='right' caption='[[3eug]], [[Resolution\|resolution]] 1.43Å' scene=''>		<StructureSection load='3eug' size='340' side='right' caption='[[3eug]], [[Resolution\|resolution]] 1.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3eug]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli~~ Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EUG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3eug]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_(strain_b) Escherichia coli (strain b)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EUG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eug\|1eug]], [[2eug\|2eug]], [[4eug\|4eug]], [[5eug\|5eug]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eug\|1eug]], [[2eug\|2eug]], [[4eug\|4eug]], [[5eug\|5eug]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~562~~ Escherichia coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37762 Escherichia coli (strain B)])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_nucleosidase Uridine nucleosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.3 3.2.2.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_nucleosidase Uridine nucleosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.3 3.2.2.3] </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=3eug FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eug OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eug RCSB], [http://www.ebi.ac.uk/pdbsum/3eug 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=3eug FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eug OCA], [http://pdbe.org/3eug PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eug RCSB], [http://www.ebi.ac.uk/pdbsum/3eug PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3eug ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	<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=3eug ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 30:
	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 3eug" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 39:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Escherichia coli]]
	[[Category: Uridine nucleosidase]]		[[Category: Uridine nucleosidase]]
	[[Category: Drohat, A C]]		[[Category: Drohat, A C]]

OCA at 14:16, 25 December 2014

2014-12-25T14:16:06Z

←Older revision		Revision as of 14:16, 25 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3eug.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED==
		+	<StructureSection load='3eug' size='340' side='right' caption='[[3eug]], [[Resolution\|resolution]] 1.43Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3eug]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EUG FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eug\|1eug]], [[2eug\|2eug]], [[4eug\|4eug]], [[5eug\|5eug]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_nucleosidase Uridine nucleosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.3 3.2.2.3] </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=3eug FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eug OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eug RCSB], [http://www.ebi.ac.uk/pdbsum/3eug PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/UNG_ECOLI UNG_ECOLI]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.[HAMAP-Rule:MF_00148]
		+	== 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/eu/3eug_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 DNA repair enzyme uracil DNA glycosylase (UDG) catalyzes the hydrolysis of premutagenic uracil residues from single-stranded or duplex DNA, producing free uracil and abasic DNA. Here we report the high-resolution crystal structures of free UDG from Escherichia coli strain B (1.60 A), its complex with uracil (1.50 A), and a second active-site complex with glycerol (1.43 A). These represent the first high-resolution structures of a prokaryotic UDG to be reported. The overall structure of the E. coli enzyme is more similar to the human UDG than the herpes virus enzyme. Significant differences between the bacterial and viral structures are seen in the side-chain positions of the putative general-acid (His187) and base (Asp64), similar to differences previously observed between the viral and human enzymes. In general, the active-site loop that contains His187 appears preorganized in comparison with the viral and human enzymes, requiring smaller substrate-induced conformational changes to bring active-site groups into catalytic position. These structural differences may be related to the large differences in the mechanism of uracil recognition used by the E. coli and viral enzymes. The pH dependence of k(cat) for wild-type UDG and the D64N and H187Q mutant enzymes is consistent with general-base catalysis by Asp64, but provides no evidence for a general-acid catalyst. The catalytic mechanism of UDG is critically discussed with respect to these results.

-	~~{{STRUCTURE_3eug\| PDB=3eug \| SCENE= }}~~	+	Crystal structure of Escherichia coli uracil DNA glycosylase and its complexes with uracil and glycerol: structure and glycosylase mechanism revisited.,Xiao G, Tordova M, Jagadeesh J, Drohat AC, Stivers JT, Gilliland GL Proteins. 1999 Apr 1;35(1):13-24. PMID:10090282<ref>PMID:10090282</ref>

-	~~===CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_10090282}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3eug]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli Escherichia coli]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA].~~	+

	==See Also==		==See Also==
-	*[[DNA ~~glycosylate~~\|DNA ~~glycosylate~~]]	+	*[[DNA glycosylase\|DNA glycosylase]]
-		+	*[[Uracil-DNA glycosylase\|Uracil-DNA glycosylase]]
-	==~~Reference~~==	+	== References ==
-	<~~ref group="xtra">PMID:010090282<~~/~~ref~~><~~references group="xtra"~~/>	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Uridine nucleosidase]]		[[Category: Uridine nucleosidase]]
-	[[Category: Drohat, A C.]]	+	[[Category: Drohat, A C]]
-	[[Category: Gilliland, G L.]]	+	[[Category: Gilliland, G L]]
-	[[Category: Jagadeesh, J.]]	+	[[Category: Jagadeesh, J]]
-	[[Category: Stivers, J T.]]	+	[[Category: Stivers, J T]]
-	[[Category: Tordova, M.]]	+	[[Category: Tordova, M]]
-	[[Category: Xiao, G.]]	+	[[Category: Xiao, G]]
	[[Category: Glycosylase]]		[[Category: Glycosylase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 17:42, 20 October 2012

2012-10-20T17:42:48Z

←Older revision		Revision as of 17:42, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3eug]] is a 1 chain structure ~~of [[DNA glycosylate]]~~ with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA].	+	[[3eug]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA].

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

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

2012-07-27T01:46:27Z

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

←Older revision

Revision as of 01:46, 27 July 2012

OCA at 01:46, 27 July 2012

2012-07-27T01:46:25Z

←Older revision		Revision as of 01:46, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3eug.png\|left\|200px]]		[[Image:3eug.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3eug", 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_3eug\| PDB=3eug \| SCENE= }}		{{STRUCTURE_3eug\| PDB=3eug \| SCENE= }}

	===CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED===		===CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_10090282}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 10090282 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_10090282}}		{{ABSTRACT_PUBMED_10090282}}

	==About this Structure==		==About this Structure==
-	~~3EUG~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA].	+	[[3eug]] is a 1 chain structure of [[DNA glycosylate]] with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA].
		+
		+	==See Also==
		+	*[[DNA glycosylate\|DNA glycosylate]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10090282~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010090282</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Uridine nucleosidase]]		[[Category: Uridine nucleosidase]]
Line 33:		Line 24:
	[[Category: Xiao, G.]]		[[Category: Xiao, G.]]
	[[Category: Glycosylase]]		[[Category: Glycosylase]]
-		+	[[Category: Hydrolase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 18:26:58 2009''~~	+

OCA at 16:26, 17 February 2009

2009-02-17T16:26:59Z

←Older revision		Revision as of 16:26, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3EUG is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA].	+	3EUG is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EUG OCA].

	==Reference==		==Reference==
-	Crystal structure of Escherichia coli uracil DNA glycosylase and its complexes with uracil and glycerol: structure and glycosylase mechanism revisited., Xiao G, Tordova M, Jagadeesh J, Drohat AC, Stivers JT, Gilliland GL, Proteins. 1999 Apr 1;35(1):13-24. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/10090282 10090282]~~	+	<ref group="xtra">PMID:10090282</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Single protein]]
	[[Category: Uridine nucleosidase]]		[[Category: Uridine nucleosidase]]
	[[Category: Drohat, A C.]]		[[Category: Drohat, A C.]]
Line 35:		Line 34:
	[[Category: Glycosylase]]		[[Category: Glycosylase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 02~~:24:~~54 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 18:26:58 2009''

OCA at 23:24, 28 July 2008

2008-07-28T23:24:59Z

←Older revision		Revision as of 23:24, 28 July 2008
Line 1:		Line 1:
-	[[Image:3eug.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:3eug.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_3eug\| PDB=3eug \| SCENE= }}		{{STRUCTURE_3eug\| PDB=3eug \| SCENE= }}

-	~~'''~~CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED~~'''~~	+	===CRYSTAL STRUCTURE OF ESCHERICHIA COLI URACIL DNA GLYCOSYLASE AND ITS COMPLEXES WITH URACIL AND GLYCEROL: STRUCTURE AND GLYCOSYLASE MECHANISM REVISITED===


-	~~==Overview==~~	+	<!--
-	The ~~DNA repair enzyme uracil DNA glycosylase (UDG) catalyzes the hydrolysis of premutagenic uracil residues from single-stranded or duplex DNA~~, ~~producing free uracil and abasic DNA. Here we report the high-resolution crystal structures of free UDG from Escherichia coli strain B (1.60 A)~~, ~~its complex with uracil (1.50 A), and a second active-site complex with glycerol (1.43 A). These represent~~ the ~~first high-resolution structures of a prokaryotic UDG~~ to ~~be reported. The overall structure of~~ the E. ~~coli enzyme is more similar to the human UDG than the herpes virus enzyme~~. ~~Significant differences between the bacterial and viral structures are seen in the side-chain positions of the putative general-acid (His187) and base (Asp64~~), ~~similar to differences previously observed between~~ the ~~viral and human enzymes~~. ~~In general, the active~~-~~site loop that contains His187 appears preorganized in comparison with the viral and human enzymes, requiring smaller substrate~~-induced conformational changes to bring active-site groups into catalytic position. These structural differences may be related to the large differences in the mechanism of uracil recognition used by the E. coli and viral enzymes. The pH dependence of k(cat) for wild-type UDG and the D64N and H187Q mutant enzymes is consistent with general-base catalysis by Asp64, but provides no evidence for a general-acid catalyst. The catalytic mechanism of UDG is critically discussed with respect to these results.	+	The line below this paragraph, {{ABSTRACT_PUBMED_10090282}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 10090282 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_10090282}}

	==About this Structure==		==About this Structure==
Line 30:		Line 34:
	[[Category: Xiao, G.]]		[[Category: Xiao, G.]]
	[[Category: Glycosylase]]		[[Category: Glycosylase]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 22~~:01:13 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 02:24:54 2008''