1lqm - Revision history

OCA at 07:35, 14 February 2024

OCA — Wed, 14 Feb 2024 07:35:04 GMT

←Older revision		Revision as of 07:35, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1lqm' size='340' side='right'caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='1lqm' size='340' side='right'caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus coli" migula 1895~~] and [https://en.wikipedia.org/wiki/~~Bppb2 Bppb2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LQM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_phage_PBS2 Bacillus phage PBS2] and [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LQM FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~<div style='overflow: auto; max~~-~~height: 3em;'>[[1eui\|1eui]]~~, [[~~1lqg~~\|~~1lqg~~]]~~, [[1lqj\|1lqj]]</div>~~</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]] 3.2Å</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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [https://pdbe.org/1lqm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [https://www.ebi.ac.uk/pdbsum/1lqm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lqm 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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [https://pdbe.org/1lqm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [https://www.ebi.ac.uk/pdbsum/1lqm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lqm 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/UNGI_BPPB2 UNGI_BPPB2]] This protein binds specifically and reversibly to the host uracil-DNA glycosylase, preventing removal of uracil residues from PBS2 DNA by the host uracil-excision repair system.	+	[https://www.uniprot.org/uniprot/UNGI_BPPB2 UNGI_BPPB2] This protein binds specifically and reversibly to the host uracil-DNA glycosylase, preventing removal of uracil residues from PBS2 DNA by the host uracil-excision repair system.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 19:
	</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=1lqm 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=1lqm ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The structures of a new crystal form of free Escherichia coli uracil DNA glycosylase (UDG), containing four molecules in the asymmetric unit, and two forms of its complex with the proteinaceous inhibitor Ugi, containing two and four crystallographically independent complexes, have been determined. A comparison of these structures and the already known crystal structures containing UDG shows that the enzyme can be considered to be made up of two independently moving structural entities or domains. A detailed study of free and DNA-bound human enzyme strengthens this conclusion. The domains close upon binding to uracil-containing DNA, whereas they do not appear to do so upon binding to Ugi. The comparative study also shows that the mobility of the molecule involves the rigid-body movement of the domains superposed on flexibility within domains.
-
-	Domain closure and action of uracil DNA glycosylase (UDG): structures of new crystal forms containing the Escherichia coli enzyme and a comparative study of the known structures involving UDG.,Saikrishnan K, Bidya Sagar M, Ravishankar R, Roy S, Purnapatre K, Handa P, Varshney U, Vijayan M Acta Crystallogr D Biol Crystallogr. 2002 Aug;58(Pt 8):1269-76. Epub 2002, Jul 20. PMID:12136137<ref>PMID:12136137</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1lqm" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[DNA glycosylase 3D structures\|DNA glycosylase 3D structures]]		*[[DNA glycosylase 3D structures\|DNA glycosylase 3D structures]]
	*[[Uracil glycosylase inhibitor\|Uracil glycosylase inhibitor]]		*[[Uracil glycosylase inhibitor\|Uracil glycosylase inhibitor]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~coli migula 1895~~]]	+	[[Category: Bacillus phage PBS2]]
-	[[Category: ~~Bppb2~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Purnapatre, K]]	+	[[Category: Purnapatre K]]
-	[[Category: Ravishankar, R]]	+	[[Category: Ravishankar R]]
-	[[Category: Roy, S]]	+	[[Category: Roy S]]
-	[[Category: Sagar~~, M B~~]]	+	[[Category: Sagar MB]]
-	[[Category: Saikrishnan, K]]	+	[[Category: Saikrishnan K]]
-	[[Category: Varshney, U]]	+	[[Category: Varshney U]]
-	[[Category: Vijayan, M]]	+	[[Category: Vijayan M]]
-	~~[[Category: Base excision]]~~	+
-	~~[[Category: Dna repair]]~~	+
-	~~[[Category: Glycosylase]]~~	+
-	~~[[Category: Hydrolase-hydrolase inhibitor complex]]~~	+
-	~~[[Category: Inhibitor~~]]	+

OCA at 08:53, 21 April 2021

OCA — Wed, 21 Apr 2021 08:53:02 GMT

←Older revision		Revision as of 08:53, 21 April 2021
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	<StructureSection load='1lqm' size='340' side='right'caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='1lqm' size='340' side='right'caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895] and [~~http~~://en.wikipedia.org/wiki/Bppb2 Bppb2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1LQM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895] and [https://en.wikipedia.org/wiki/Bppb2 Bppb2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LQM FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</div></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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [~~http~~://pdbe.org/1lqm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1lqm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1lqm 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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [https://pdbe.org/1lqm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [https://www.ebi.ac.uk/pdbsum/1lqm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lqm 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] [[~~http~~://www.uniprot.org/uniprot/UNGI_BPPB2 UNGI_BPPB2]] This protein binds specifically and reversibly to the host uracil-DNA glycosylase, preventing removal of uracil residues from PBS2 DNA by the host uracil-excision repair system.	+	[[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/UNGI_BPPB2 UNGI_BPPB2]] This protein binds specifically and reversibly to the host uracil-DNA glycosylase, preventing removal of uracil residues from PBS2 DNA by the host uracil-excision repair system.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 12:57, 17 July 2019

OCA — Wed, 17 Jul 2019 12:57:23 GMT

←Older revision		Revision as of 12:57, 17 July 2019
Line 1:		Line 1:
		+
	==ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN==		==ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN==
-	<StructureSection load='1lqm' size='340' side='right' caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>	+	<StructureSection load='1lqm' size='340' side='right'caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895] and [http://en.wikipedia.org/wiki/Bppb2 Bppb2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LQM FirstGlance]. <br>		<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895] and [http://en.wikipedia.org/wiki/Bppb2 Bppb2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LQM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [http://pdbe.org/1lqm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [http://www.ebi.ac.uk/pdbsum/1lqm 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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [http://pdbe.org/1lqm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [http://www.ebi.ac.uk/pdbsum/1lqm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1lqm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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/lq/1lqm_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/lq/1lqm_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>
	</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=1lqm 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:

	==See Also==		==See Also==
-	*[[DNA glycosylase\|DNA glycosylase]]	+	*[[DNA glycosylase 3D structures\|DNA glycosylase 3D structures]]
-	*[[Uracil ~~glycosylate inhibitor\|Uracil glycosylate inhibitor]]~~	+	*[[Uracil glycosylase inhibitor\|Uracil glycosylase inhibitor]]
-	*[[Uracil-DNA glycosylase\|Uracil-DNA glycosylase]]	+
-	*[[Uracil-DNA glycosylase inhibitor\|Uracil~~-DNA~~ glycosylase inhibitor]]	+
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 38:
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
	[[Category: Bppb2]]		[[Category: Bppb2]]
		+	[[Category: Large Structures]]
	[[Category: Purnapatre, K]]		[[Category: Purnapatre, K]]
	[[Category: Ravishankar, R]]		[[Category: Ravishankar, R]]

OCA at 08:59, 11 September 2015

OCA — Fri, 11 Sep 2015 08:59:15 GMT

←Older revision		Revision as of 08:59, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1lqm' size='340' side='right' caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='1lqm' size='340' side='right' caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_phage_pbs2 Bacillus phage pbs2~~] and [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia coli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LQM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895] and [http://en.wikipedia.org/wiki/Bppb2 Bppb2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LQM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [http://www.ebi.ac.uk/pdbsum/1lqm 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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [http://pdbe.org/1lqm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [http://www.ebi.ac.uk/pdbsum/1lqm PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 1lqm" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~phage pbs2~~]]	+	[[Category: Bacillus coli migula 1895]]
-	[[Category: ~~Escherichia coli~~]]	+	[[Category: Bppb2]]
	[[Category: Purnapatre, K]]		[[Category: Purnapatre, K]]
	[[Category: Ravishankar, R]]		[[Category: Ravishankar, R]]

OCA at 14:11, 25 December 2014

OCA — Thu, 25 Dec 2014 14:11:02 GMT

←Older revision		Revision as of 14:11, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LQM FirstGlance]. <br>		<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LQM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [http://www.ebi.ac.uk/pdbsum/1lqm 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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [http://www.ebi.ac.uk/pdbsum/1lqm PDBsum]</span></td></tr>
-	<table>	+	</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] [[http://www.uniprot.org/uniprot/UNGI_BPPB2 UNGI_BPPB2]] This protein binds specifically and reversibly to the host uracil-DNA glycosylase, preventing removal of uracil residues from PBS2 DNA by the host uracil-excision repair system.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Bacillus phage pbs2]]		[[Category: Bacillus phage pbs2]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Purnapatre, K.]]	+	[[Category: Purnapatre, K]]
-	[[Category: Ravishankar, R.]]	+	[[Category: Ravishankar, R]]
-	[[Category: Roy, S.]]	+	[[Category: Roy, S]]
-	[[Category: Sagar, M B.]]	+	[[Category: Sagar, M B]]
-	[[Category: Saikrishnan, K.]]	+	[[Category: Saikrishnan, K]]
-	[[Category: Varshney, U.]]	+	[[Category: Varshney, U]]
-	[[Category: Vijayan, M.]]	+	[[Category: Vijayan, M]]
	[[Category: Base excision]]		[[Category: Base excision]]
	[[Category: Dna repair]]		[[Category: Dna repair]]

OCA at 11:02, 3 October 2014

OCA — Fri, 03 Oct 2014 11:02:56 GMT

←Older revision		Revision as of 11:02, 3 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_1lqm\| PDB=1lqm \| SCENE= }}~~	+	==ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN==
-	===ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN===	+	<StructureSection load='1lqm' size='340' side='right' caption='[[1lqm]], [[Resolution\|resolution]] 3.20Å' scene=''>
-	~~{{ABSTRACT_PUBMED_12136137}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LQM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1eui\|1eui]], [[1lqg\|1lqg]], [[1lqj\|1lqj]]</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=1lqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lqm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lqm RCSB], [http://www.ebi.ac.uk/pdbsum/1lqm 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/lq/1lqm_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 structures of a new crystal form of free Escherichia coli uracil DNA glycosylase (UDG), containing four molecules in the asymmetric unit, and two forms of its complex with the proteinaceous inhibitor Ugi, containing two and four crystallographically independent complexes, have been determined. A comparison of these structures and the already known crystal structures containing UDG shows that the enzyme can be considered to be made up of two independently moving structural entities or domains. A detailed study of free and DNA-bound human enzyme strengthens this conclusion. The domains close upon binding to uracil-containing DNA, whereas they do not appear to do so upon binding to Ugi. The comparative study also shows that the mobility of the molecule involves the rigid-body movement of the domains superposed on flexibility within domains.

-	~~==About this Structure==~~	+	Domain closure and action of uracil DNA glycosylase (UDG): structures of new crystal forms containing the Escherichia coli enzyme and a comparative study of the known structures involving UDG.,Saikrishnan K, Bidya Sagar M, Ravishankar R, Roy S, Purnapatre K, Handa P, Varshney U, Vijayan M Acta Crystallogr D Biol Crystallogr. 2002 Aug;58(Pt 8):1269-76. Epub 2002, Jul 20. PMID:12136137<ref>PMID:12136137</ref>
-	~~[[1lqm]] is~~ a ~~8 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http~~:~~//en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=1LQM OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
-	*[[DNA ~~glycosylate~~\|DNA ~~glycosylate~~]]	+	*[[DNA glycosylase\|DNA glycosylase]]
	*[[Uracil glycosylate inhibitor\|Uracil glycosylate inhibitor]]		*[[Uracil glycosylate inhibitor\|Uracil glycosylate inhibitor]]
-		+	*[[Uracil-DNA glycosylase\|Uracil-DNA glycosylase]]
-	==~~Reference~~==	+	*[[Uracil-DNA glycosylase inhibitor\|Uracil-DNA glycosylase inhibitor]]
-	<~~ref group="xtra">PMID:012136137<~~/~~ref~~><~~references group="xtra"~~/>	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus phage pbs2]]		[[Category: Bacillus phage pbs2]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]

OCA at 10:14, 11 March 2013

OCA — Mon, 11 Mar 2013 10:14:28 GMT

←Older revision		Revision as of 10:14, 11 March 2013
Line 1:		Line 1:
-	[[Image:1lqm.png\|left\|200px]]
-
	{{STRUCTURE_1lqm\| PDB=1lqm \| SCENE= }}		{{STRUCTURE_1lqm\| PDB=1lqm \| SCENE= }}
-
	===ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN===		===ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN===
-
	{{ABSTRACT_PUBMED_12136137}}		{{ABSTRACT_PUBMED_12136137}}

OCA at 17:39, 20 October 2012

OCA — Sat, 20 Oct 2012 17:39:31 GMT

←Older revision		Revision as of 17:39, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1lqm]] is a 8 chain structure ~~of [[DNA glycosylate]]~~ with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA].	+	[[1lqm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA].

	==See Also==		==See Also==
	*[[DNA glycosylate\|DNA glycosylate]]		*[[DNA glycosylate\|DNA glycosylate]]
		+	*[[Uracil glycosylate inhibitor\|Uracil glycosylate inhibitor]]

	==Reference==		==Reference==

OCA: Protected "1lqm" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 01:37:08 GMT

Protected "1lqm" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:37, 27 July 2012

OCA at 01:37, 27 July 2012

OCA — Fri, 27 Jul 2012 01:37:07 GMT

←Older revision		Revision as of 01:37, 27 July 2012
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-	{{Seed}}
	[[Image:1lqm.png\|left\|200px]]		[[Image:1lqm.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1lqm", 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_1lqm\| PDB=1lqm \| SCENE= }}		{{STRUCTURE_1lqm\| PDB=1lqm \| SCENE= }}

	===ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN===		===ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE COMPLEX WITH URACIL-DNA GLYCOSYLASE INHIBITOR PROTEIN===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12136137}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12136137 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12136137}}		{{ABSTRACT_PUBMED_12136137}}

	==About this Structure==		==About this Structure==
-	~~1LQM~~ is a 8 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA].	+	[[1lqm]] is a 8 chain structure of [[DNA glycosylate]] with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LQM OCA].
		+
		+	==See Also==
		+	*[[DNA glycosylate\|DNA glycosylate]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12136137~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012136137</ref><references group="xtra"/>
	[[Category: Bacillus phage pbs2]]		[[Category: Bacillus phage pbs2]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
Line 36:		Line 27:
	[[Category: Dna repair]]		[[Category: Dna repair]]
	[[Category: Glycosylase]]		[[Category: Glycosylase]]
		+	[[Category: Hydrolase-hydrolase inhibitor complex]]
	[[Category: Inhibitor]]		[[Category: Inhibitor]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 18:20:31 2009''