3gab - Revision history

OCA at 09:53, 21 February 2024

OCA — Wed, 21 Feb 2024 09:53:30 GMT

←Older revision		Revision as of 09:53, 21 February 2024
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	<StructureSection load='3gab' size='340' side='right'caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3gab' size='340' side='right'caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"vibrio_subtilis"_ehrenberg_1835 "vibrio~~ subtilis~~" ehrenberg 1835~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GAB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GAB 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;'>[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</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]] 2.5Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">BSU17050, mutL ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=~~5&~~id=1423 "Vibrio subtilis" Ehrenberg 1835])~~</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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [https://pdbe.org/3gab PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [https://www.ebi.ac.uk/pdbsum/3gab PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gab 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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [https://pdbe.org/3gab PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [https://www.ebi.ac.uk/pdbsum/3gab PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gab ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/MUTL_BACSU MUTL_BACSU]] This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a "molecular matchmaker", a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex (By similarity). Overexpression of mutSL partially suppresses the high spontaneous mutation frequency of a ytkD/mutM/yfhQ triple disruption which lacks the system required to prevent damage by oxidized guanine (8-oxo-dGTP). This suggests that MutSL also functions to repair mismatches due to oxidative stress in both growing and stationary phase cells.<ref>PMID:19011023</ref>	+	[https://www.uniprot.org/uniprot/MUTL_BACSU MUTL_BACSU] This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a "molecular matchmaker", a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex (By similarity). Overexpression of mutSL partially suppresses the high spontaneous mutation frequency of a ytkD/mutM/yfhQ triple disruption which lacks the system required to prevent damage by oxidized guanine (8-oxo-dGTP). This suggests that MutSL also functions to repair mismatches due to oxidative stress in both growing and stationary phase cells.<ref>PMID:19011023</ref>
	== 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=3gab 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=3gab ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	DNA mismatch repair corrects errors that have escaped polymerase proofreading, increasing replication fidelity 100- to 1000-fold in organisms ranging from bacteria to humans. The MutL protein plays a central role in mismatch repair by coordinating multiple protein-protein interactions that signal strand removal upon mismatch recognition by MutS. Here we report the crystal structure of the endonuclease domain of Bacillus subtilis MutL. The structure is organized in dimerization and regulatory subdomains connected by a helical lever spanning the conserved endonuclease motif. Additional conserved motifs cluster around the lever and define a Zn(2+)-binding site that is critical for MutL function in vivo. The structure unveils a powerful inhibitory mechanism to prevent undesired nicking of newly replicated DNA and allows us to propose a model describing how the interaction with MutS and the processivity clamp could license the endonuclease activity of MutL. The structure also provides a molecular framework to propose and test additional roles of MutL in mismatch repair.

-	Structure of the endonuclease domain of MutL: unlicensed to cut.,Pillon MC, Lorenowicz JJ, Uckelmann M, Klocko AD, Mitchell RR, Chung YS, Modrich P, Walker GC, Simmons LA, Friedhoff P, Guarne A Mol Cell. 2010 Jul 9;39(1):145-51. PMID:20603082<ref>PMID:20603082</ref>	+	==See Also==
-		+	*[[DNA mismatch repair protein 3D structures\|DNA mismatch repair protein 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 3gab" style~~=~~"background-color:#fffaf0;"></div>~~	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibrio~~ subtilis ~~ehrenberg 1835~~]]	+	[[Category: Bacillus subtilis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chung~~, Y S~~]]	+	[[Category: Chung YS]]
-	[[Category: Friedhoff, P]]	+	[[Category: Friedhoff P]]
-	[[Category: Guarne, A]]	+	[[Category: Guarne A]]
-	[[Category: Lorenowicz~~, J J~~]]	+	[[Category: Lorenowicz JJ]]
-	[[Category: Mitchell~~, R R~~]]	+	[[Category: Mitchell RR]]
-	[[Category: Pillon~~, M C]]~~	+	[[Category: Pillon MC]]
-	~~[[Category: Dna damage]]~~	+
-	~~[[Category: Dna repair]]~~	+
-	~~[[Category: Endonuclease activity]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Mismatch repair~~]]	+

OCA at 07:59, 9 March 2022

OCA — Wed, 09 Mar 2022 07:59:56 GMT

←Older revision		Revision as of 07:59, 9 March 2022
Line 1:		Line 1:

	==C-terminal domain of Bacillus subtilis MutL crystal form I==		==C-terminal domain of Bacillus subtilis MutL crystal form I==
-	<StructureSection load='3gab' size='340' side='right' caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='3gab' size='340' side='right'caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3GAB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GAB FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</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;'>[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BSU17050, mutL ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BSU17050, mutL ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [~~http~~://pdbe.org/3gab PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3gab PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3gab 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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [https://pdbe.org/3gab PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [https://www.ebi.ac.uk/pdbsum/3gab PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gab ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MUTL_BACSU MUTL_BACSU]] This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a "molecular matchmaker", a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex (By similarity). Overexpression of mutSL partially suppresses the high spontaneous mutation frequency of a ytkD/mutM/yfhQ triple disruption which lacks the system required to prevent damage by oxidized guanine (8-oxo-dGTP). This suggests that MutSL also functions to repair mismatches due to oxidative stress in both growing and stationary phase cells.<ref>PMID:19011023</ref>	+	[[https://www.uniprot.org/uniprot/MUTL_BACSU MUTL_BACSU]] This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a "molecular matchmaker", a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex (By similarity). Overexpression of mutSL partially suppresses the high spontaneous mutation frequency of a ytkD/mutM/yfhQ triple disruption which lacks the system required to prevent damage by oxidized guanine (8-oxo-dGTP). This suggests that MutSL also functions to repair mismatches due to oxidative stress in both growing and stationary phase cells.<ref>PMID:19011023</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Vibrio subtilis ehrenberg 1835]]		[[Category: Vibrio subtilis ehrenberg 1835]]
		+	[[Category: Large Structures]]
	[[Category: Chung, Y S]]		[[Category: Chung, Y S]]
	[[Category: Friedhoff, P]]		[[Category: Friedhoff, P]]

OCA at 05:12, 7 December 2018

OCA — Fri, 07 Dec 2018 05:12:36 GMT

←Older revision		Revision as of 05:12, 7 December 2018
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	<StructureSection load='3gab' size='340' side='right' caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3gab' size='340' side='right' caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"~~bacillus_globigii~~"~~_migula_1900~~ "~~bacillus globigii~~" ~~migula 1900~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GAB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GAB FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BSU17050, mutL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "~~Bacillus globigii~~" ~~Migula 1900~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BSU17050, mutL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [http://pdbe.org/3gab PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [http://www.ebi.ac.uk/pdbsum/3gab PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3gab ProSAT]</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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [http://pdbe.org/3gab PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [http://www.ebi.ac.uk/pdbsum/3gab PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3gab ProSAT]</span></td></tr>
	</table>		</table>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ga/3gab_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ga/3gab_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 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus globigii migula 1900~~]]	+	[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: Chung, Y S]]		[[Category: Chung, Y S]]
	[[Category: Friedhoff, P]]		[[Category: Friedhoff, P]]

OCA at 22:19, 5 August 2016

OCA — Fri, 05 Aug 2016 22:19:22 GMT

←Older revision		Revision as of 22:19, 5 August 2016
Line 1:		Line 1:
		+
	==C-terminal domain of Bacillus subtilis MutL crystal form I==		==C-terminal domain of Bacillus subtilis MutL crystal form I==
	<StructureSection load='3gab' size='340' side='right' caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3gab' size='340' side='right' caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_subtilis Bacillus subtilis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GAB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GAB FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BSU17050, mutL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus ~~subtilis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BSU17050, mutL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [http://www.ebi.ac.uk/pdbsum/3gab 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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [http://pdbe.org/3gab PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [http://www.ebi.ac.uk/pdbsum/3gab PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3gab ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	<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=3gab ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3gab" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~subtilis~~]]	+	[[Category: Bacillus globigii migula 1900]]
	[[Category: Chung, Y S]]		[[Category: Chung, Y S]]
	[[Category: Friedhoff, P]]		[[Category: Friedhoff, P]]

OCA at 22:23, 25 December 2014

OCA — Thu, 25 Dec 2014 22:23:49 GMT

←Older revision		Revision as of 22:23, 25 December 2014
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [http://www.ebi.ac.uk/pdbsum/3gab 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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [http://www.ebi.ac.uk/pdbsum/3gab PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MUTL_BACSU MUTL_BACSU]] This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a "molecular matchmaker", a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex (By similarity). Overexpression of mutSL partially suppresses the high spontaneous mutation frequency of a ytkD/mutM/yfhQ triple disruption which lacks the system required to prevent damage by oxidized guanine (8-oxo-dGTP). This suggests that MutSL also functions to repair mismatches due to oxidative stress in both growing and stationary phase cells.<ref>PMID:19011023</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:07, 3 December 2014

OCA — Wed, 03 Dec 2014 10:07:10 GMT

←Older revision		Revision as of 10:07, 3 December 2014
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-	[[~~Image:~~3gab.~~png~~\|~~left~~\|200px]]	+	==C-terminal domain of Bacillus subtilis MutL crystal form I==
		+	<StructureSection load='3gab' size='340' side='right' caption='[[3gab]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3gab]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GAB FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1x9z\|1x9z]], [[1bkn\|1bkn]], [[1b63\|1b63]], [[1h7s\|1h7s]], [[1h7u\|1h7u]], [[3kdg\|3kdg]], [[3kdk\|3kdk]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BSU17050, mutL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</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=3gab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gab OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gab RCSB], [http://www.ebi.ac.uk/pdbsum/3gab 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/ga/3gab_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 ==
		+	DNA mismatch repair corrects errors that have escaped polymerase proofreading, increasing replication fidelity 100- to 1000-fold in organisms ranging from bacteria to humans. The MutL protein plays a central role in mismatch repair by coordinating multiple protein-protein interactions that signal strand removal upon mismatch recognition by MutS. Here we report the crystal structure of the endonuclease domain of Bacillus subtilis MutL. The structure is organized in dimerization and regulatory subdomains connected by a helical lever spanning the conserved endonuclease motif. Additional conserved motifs cluster around the lever and define a Zn(2+)-binding site that is critical for MutL function in vivo. The structure unveils a powerful inhibitory mechanism to prevent undesired nicking of newly replicated DNA and allows us to propose a model describing how the interaction with MutS and the processivity clamp could license the endonuclease activity of MutL. The structure also provides a molecular framework to propose and test additional roles of MutL in mismatch repair.

-	~~{{STRUCTURE_3gab\| PDB=3gab \| SCENE= }}~~	+	Structure of the endonuclease domain of MutL: unlicensed to cut.,Pillon MC, Lorenowicz JJ, Uckelmann M, Klocko AD, Mitchell RR, Chung YS, Modrich P, Walker GC, Simmons LA, Friedhoff P, Guarne A Mol Cell. 2010 Jul 9;39(1):145-51. PMID:20603082<ref>PMID:20603082</ref>

-	~~===C-terminal domain~~ of ~~Bacillus subtilis MutL crystal form I===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20603082}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3gab]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_subtilis Bacillus subtilis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:020603082<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
-	[[Category: Chung, Y S.]]	+	[[Category: Chung, Y S]]
-	[[Category: Friedhoff, P.]]	+	[[Category: Friedhoff, P]]
-	[[Category: Guarne, A.]]	+	[[Category: Guarne, A]]
-	[[Category: Lorenowicz, J J.]]	+	[[Category: Lorenowicz, J J]]
-	[[Category: Mitchell, R R.]]	+	[[Category: Mitchell, R R]]
-	[[Category: Pillon, M C.]]	+	[[Category: Pillon, M C]]
	[[Category: Dna damage]]		[[Category: Dna damage]]
	[[Category: Dna repair]]		[[Category: Dna repair]]

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

OCA — Wed, 20 Feb 2013 14:21:55 GMT

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

←Older revision

Revision as of 14:21, 20 February 2013

OCA at 14:21, 20 February 2013

OCA — Wed, 20 Feb 2013 14:21:51 GMT

←Older revision		Revision as of 14:21, 20 February 2013
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-	~~{{Seed}}~~	+	[[Image:3gab.png\|left\|200px]]
-	[[Image:3gab.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3gab", 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_3gab\| PDB=3gab \| SCENE= }}		{{STRUCTURE_3gab\| PDB=3gab \| SCENE= }}

	===C-terminal domain of Bacillus subtilis MutL crystal form I===		===C-terminal domain of Bacillus subtilis MutL crystal form I===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20603082}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20603082 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20603082}}		{{ABSTRACT_PUBMED_20603082}}

	==About this Structure==		==About this Structure==
-	~~3GAB~~ is a 4 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA].	+	[[3gab]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20603082~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020603082</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Chung, Y S.]]		[[Category: Chung, Y S.]]
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	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Mismatch repair]]		[[Category: Mismatch repair]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 21 10:15:44 2010''

OCA at 06:09, 21 July 2010

OCA — Wed, 21 Jul 2010 06:09:19 GMT

←Older revision		Revision as of 06:09, 21 July 2010
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3gab.jpg\|left\|200px]]

-	The ~~entry 3gab~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3gab", 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_3gab\| PDB=3gab \| SCENE= }}

-	~~Authors: Guarne, A., Pillon, M.~~C~~., Lorenowicz, J.J., Mitchell, R.R., Chung, Y.S., Friedhoff, P.~~	+	===C-terminal domain of Bacillus subtilis MutL crystal form I===

-	Description: C-terminal domain of Bacillus subtilis MutL crystal form I

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Nov 18 18~~:41:~~26 2009~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20603082}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20603082 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20603082}}
		+
		+	==About this Structure==
		+	3GAB is a 4 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GAB OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20603082</ref><references group="xtra"/>
		+	[[Category: Bacillus subtilis]]
		+	[[Category: Chung, Y S.]]
		+	[[Category: Friedhoff, P.]]
		+	[[Category: Guarne, A.]]
		+	[[Category: Lorenowicz, J J.]]
		+	[[Category: Mitchell, R R.]]
		+	[[Category: Pillon, M C.]]
		+	[[Category: Dna damage]]
		+	[[Category: Dna repair]]
		+	[[Category: Endonuclease activity]]
		+	[[Category: Hydrolase]]
		+	[[Category: Mismatch repair]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 21 10:15:44 2010''

OCA at 16:41, 18 November 2009

OCA — Wed, 18 Nov 2009 16:41:27 GMT

←Older revision		Revision as of 16:41, 18 November 2009
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	Authors: Guarne, A., Pillon, M.C., Lorenowicz, J.J., Mitchell, R.R., Chung, Y.S., Friedhoff, P.		Authors: Guarne, A., Pillon, M.C., Lorenowicz, J.J., Mitchell, R.R., Chung, Y.S., Friedhoff, P.

-	Description:	+	Description: C-terminal domain of Bacillus subtilis MutL crystal form I

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 25 12~~:13:57 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 18 18:41:26 2009''