3k3r - Revision history

OCA at 10:15, 21 February 2024

2024-02-21T10:15:02Z

← Older revision		Revision as of 10:15, 21 February 2024
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	<StructureSection load='3k3r' size='340' side='right'caption='[[3k3r]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='3k3r' size='340' side='right'caption='[[3k3r]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3k3r]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K3R FirstGlance]. <br>		<table><tr><td colspan='2'>[[3k3r]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K3R 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;'>[[3jso\|3jso]], [[3jsp\|3jsp]]</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~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">lexA, exrA, spr, tsl, umuA, b4043, JW4003 ([https://www.ncbi.nlm.nih~~.~~gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=83333 ECOLI])</td></tr>~~
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Repressor_lexA Repressor lexA], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.88 3.4.21.88] </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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [https://pdbe.org/3k3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [https://www.ebi.ac.uk/pdbsum/3k3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k3r 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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [https://pdbe.org/3k3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [https://www.ebi.ac.uk/pdbsum/3k3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k3r ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/LEXA_ECOLI LEXA_ECOLI]] Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. Binds to the 16 bp palindromic sequence 5'-CTGTATATATATACAG-3'. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair.<ref>PMID:7027255</ref> <ref>PMID:7027256</ref>		[https://www.uniprot.org/uniprot/LEXA_ECOLI LEXA_ECOLI] Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. Binds to the 16 bp palindromic sequence 5'-CTGTATATATATACAG-3'. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair.<ref>PMID:7027255</ref> <ref>PMID:7027256</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 21:		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=3k3r 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=3k3r ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The eubacterial SOS system is a paradigm of cellular DNA damage and repair, and its activation can contribute to antibiotic resistance. Under normal conditions, LexA represses the transcription of many DNA repair proteins by binding to SOS 'boxes' in their operators. Under genotoxic stress, accumulating complexes of RecA, ATP and single-stranded DNA (ssDNA) activate LexA for autocleavage. To address how LexA recognizes its binding sites, we determined three crystal structures of Escherichia coli LexA in complex with SOS boxes. Here we report the structure of these LexA-DNA complexes. The DNA-binding domains of the LexA dimer interact with the DNA in the classical fashion of a winged helix-turn-helix motif. However, the wings of these two DNA-binding domains bind to the same minor groove of the DNA. These wing-wing contacts may explain why the spacing between the two half-sites of E. coli SOS boxes is invariant.

	~~Structure of the LexA-DNA complex and implications for SOS box measurement.,Zhang AP, Pigli YZ, Rice PA Nature. 2010 Aug 12;466(7308):883-6. PMID:20703307<ref>PMID:20703307</ref>~~

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 3k3r" style="background-color:#fffaf0;"></div>~~
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Ecoli~~]]		[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	~~[[Category: Repressor lexA]]~~		[[Category: Pigli YZ]]
	[[Category: Pigli~~, Y Z~~]]		[[Category: Rice PA]]
	[[Category: Rice~~, P A~~]]		[[Category: Zhang APP]]
	[[Category: Zhang~~, A P.P]]~~
	~~[[Category: Autocatalytic cleavage]]~~
	~~[[Category: Dna damage]]~~
	~~[[Category: Dna repair]]~~
	~~[[Category: Dna replication]]~~
	~~[[Category: Dna-binding]]~~
	~~[[Category: Double helix]]~~
	~~[[Category: Hydrolase]]~~
	~~[[Category: Hydrolase-dna complex]]~~
	~~[[Category: Lexa]]~~
	~~[[Category: Protein-dna complex]]~~
	~~[[Category: Repressor]]~~
	~~[[Category: Sos response]]~~
	~~[[Category: Sos system]]~~
	~~[[Category: Transcription]]~~
	~~[[Category: Transcription regulation]]~~
	~~[[Category: Winged helix-turn-helix~~]]

OCA at 12:20, 13 October 2021

2021-10-13T12:20:49Z

← Older revision		Revision as of 12:20, 13 October 2021
Line 1:		Line 1:

	==Unrefined crystal structure of a LexA-DNA complex==		==Unrefined crystal structure of a LexA-DNA complex==
	<StructureSection load='3k3r' size='340' side='right' caption='[[3k3r]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='3k3r' size='340' side='right'caption='[[3k3r]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3k3r]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3K3R FirstGlance]. <br>		<table><tr><td colspan='2'>[[3k3r]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K3R FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jso\|3jso]], [[3jsp\|3jsp]]</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;'>[[3jso\|3jso]], [[3jsp\|3jsp]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lexA, exrA, spr, tsl, umuA, b4043, JW4003 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lexA, exrA, spr, tsl, umuA, b4043, JW4003 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Repressor_lexA Repressor lexA], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.88 3.4.21.88] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Repressor_lexA Repressor lexA], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.88 3.4.21.88] </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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [~~http~~://pdbe.org/3k3r PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3k3r PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3k3r 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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [https://pdbe.org/3k3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [https://www.ebi.ac.uk/pdbsum/3k3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k3r ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/LEXA_ECOLI LEXA_ECOLI]] Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. Binds to the 16 bp palindromic sequence 5'-CTGTATATATATACAG-3'. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair.<ref>PMID:7027255</ref> <ref>PMID:7027256</ref>		[[https://www.uniprot.org/uniprot/LEXA_ECOLI LEXA_ECOLI]] Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. Binds to the 16 bp palindromic sequence 5'-CTGTATATATATACAG-3'. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair.<ref>PMID:7027255</ref> <ref>PMID:7027256</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k3/3k3r_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k3/3k3r_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 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Ecoli]]		[[Category: Ecoli]]
			[[Category: Large Structures]]
	[[Category: Repressor lexA]]		[[Category: Repressor lexA]]
	[[Category: Pigli, Y Z]]		[[Category: Pigli, Y Z]]

OCA at 16:15, 5 August 2016

2016-08-05T16:15:05Z

← Older revision		Revision as of 16:15, 5 August 2016
Line 1:		Line 1:

	==Unrefined crystal structure of a LexA-DNA complex==		==Unrefined crystal structure of a LexA-DNA complex==
	<StructureSection load='3k3r' size='340' side='right' caption='[[3k3r]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='3k3r' size='340' side='right' caption='[[3k3r]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3k3r]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli_k-12 Escherichia coli k-12~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K3R FirstGlance]. <br>		<table><tr><td colspan='2'>[[3k3r]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K3R FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jso\|3jso]], [[3jsp\|3jsp]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jso\|3jso]], [[3jsp\|3jsp]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lexA, exrA, spr, tsl, umuA, b4043, JW4003 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ~~Escherichia coli K-12~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lexA, exrA, spr, tsl, umuA, b4043, JW4003 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Repressor_lexA Repressor lexA], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.88 3.4.21.88] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Repressor_lexA Repressor lexA], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.88 3.4.21.88] </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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [http://www.ebi.ac.uk/pdbsum/3k3r 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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [http://pdbe.org/3k3r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [http://www.ebi.ac.uk/pdbsum/3k3r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3k3r ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<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=3k3r ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 29:
	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 3k3r" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Escherichia coli k-12~~]]		[[Category: Ecoli]]
	[[Category: Repressor lexA]]		[[Category: Repressor lexA]]
	[[Category: Pigli, Y Z]]		[[Category: Pigli, Y Z]]

OCA at 03:54, 25 December 2014

2014-12-25T03:54:02Z

← Older revision		Revision as of 03:54, 25 December 2014
Line 8:		Line 8:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [http://www.ebi.ac.uk/pdbsum/3k3r 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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [http://www.ebi.ac.uk/pdbsum/3k3r PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/LEXA_ECOLI LEXA_ECOLI]] Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. Binds to the 16 bp palindromic sequence 5'-CTGTATATATATACAG-3'. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair.<ref>PMID:7027255</ref> <ref>PMID:7027256</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 16:57, 18 December 2014

2014-12-18T16:57:25Z

← Older revision		Revision as of 16:57, 18 December 2014
Line 1:		Line 1:
	~~{{STRUCTURE_3k3r~~\| ~~PDB~~=3k3r \| ~~SCENE~~= }}		==Unrefined crystal structure of a LexA-DNA complex==
	===~~Unrefined crystal~~ structure of a LexA-DNA complex~~===~~		<StructureSection load='3k3r' size='340' side='right' caption='[[3k3r]], [[Resolution\|resolution]] 3.20Å' scene=''>
	~~{{ABSTRACT_PUBMED_20703307}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[3k3r]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3K3R FirstGlance]. <br>
			</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jso\|3jso]], [[3jsp\|3jsp]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lexA, exrA, spr, tsl, umuA, b4043, JW4003 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 Escherichia coli K-12])</td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Repressor_lexA Repressor lexA], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.88 3.4.21.88] </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=3k3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3k3r RCSB], [http://www.ebi.ac.uk/pdbsum/3k3r 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/k3/3k3r_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 eubacterial SOS system is a paradigm of cellular DNA damage and repair, and its activation can contribute to antibiotic resistance. Under normal conditions, LexA represses the transcription of many DNA repair proteins by binding to SOS 'boxes' in their operators. Under genotoxic stress, accumulating complexes of RecA, ATP and single-stranded DNA (ssDNA) activate LexA for autocleavage. To address how LexA recognizes its binding sites, we determined three crystal structures of Escherichia coli LexA in complex with SOS boxes. Here we report the structure of these LexA-DNA complexes. The DNA-binding domains of the LexA dimer interact with the DNA in the classical fashion of a winged helix-turn-helix motif. However, the wings of these two DNA-binding domains bind to the same minor groove of the DNA. These wing-wing contacts may explain why the spacing between the two half-sites of E. coli SOS boxes is invariant.

	~~==Function==~~		Structure of the LexA-DNA complex and implications for SOS box measurement.,Zhang AP, Pigli YZ, Rice PA Nature. 2010 Aug 12;466(7308):883-6. PMID:20703307<ref>PMID:20703307</ref>
	~~[[http://www.uniprot.org/uniprot/LEXA_ECOLI LEXA_ECOLI]] Represses a number~~ of ~~genes involved in~~ the ~~response to~~ DNA ~~damage (~~SOS ~~response)~~, ~~including recA and lexA~~. ~~Binds to the 16 bp palindromic sequence 5'-CTGTATATATATACAG-3'. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA~~-~~binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair~~.~~<ref>~~PMID:~~7027255</ref>~~ <ref>PMID:~~7027256~~</ref>

	~~==About this Structure==~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~[[3k3r]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA].~~		</div>
			== References ==
	==~~Reference~~==		<references/>
	~~<ref group="xtra">PMID:020703307</ref>~~<references ~~group="xtra"~~/><~~references~~/>		__TOC__
			</StructureSection>
	[[Category: Escherichia coli k-12]]		[[Category: Escherichia coli k-12]]
	[[Category: Repressor lexA]]		[[Category: Repressor lexA]]
	[[Category: Pigli, Y Z.]]		[[Category: Pigli, Y Z]]
	[[Category: Rice, P A.]]		[[Category: Rice, P A]]
	[[Category: Zhang, A P.P.]]		[[Category: Zhang, A P.P]]
	[[Category: Autocatalytic cleavage]]		[[Category: Autocatalytic cleavage]]
	[[Category: Dna damage]]		[[Category: Dna damage]]

OCA at 07:33, 19 June 2013

2013-06-19T07:33:28Z

← Older revision		Revision as of 07:33, 19 June 2013
Line 1:		Line 1:
	{{STRUCTURE_3k3r\| PDB=3k3r \| SCENE= }}		{{STRUCTURE_3k3r\| PDB=3k3r \| SCENE= }}
	===Unrefined crystal structure of a LexA-DNA complex===		===Unrefined crystal structure of a LexA-DNA complex===
	{{~~ABSTRACT_PUBMED_020703307~~}}		{{ABSTRACT_PUBMED_20703307}}

	==Function==		==Function==

OCA: Protected "3k3r" [edit=sysop:move=sysop]

2013-04-04T02:46:20Z

Protected "3k3r" [edit=sysop:move=sysop]

← Older revision	Revision as of 02:46, 4 April 2013
(No difference)

OCA at 02:46, 4 April 2013

2013-04-04T02:46:14Z

@@ Line 1: / Line 1: @@
 {{STRUCTURE_3k3r|  PDB=3k3r  |  SCENE=  }}
 ===Unrefined crystal structure of a LexA-DNA complex===
 ==About this Structure==
-K3R is a 4 chains structure with sequences from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA].
+[[3k3r]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3R OCA].
 [[Category: Escherichia coli k-12]]
 [[Category: Repressor lexA]]
@@ Line 36: / Line 32: @@
 [[Category: Transcription regulation]]
 [[Category: Winged helix-turn-helix]]

OCA at 07:34, 18 August 2010

2010-08-18T07:34:53Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+{{Seed}}
-The entry 3k3r is ON HOLD  until Paper Publication
+<!--
-Authors: Zhang, A.P.P., Pigli, Y.Z., Rice, P.A.
+===Unrefined crystal structure of a LexA-DNA complex===
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr  7 10:18:14 2010''
+==About this Structure==

OCA at 07:18, 7 April 2010

2010-04-07T07:18:14Z

← Older revision		Revision as of 07:18, 7 April 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 3k3r is ON HOLD		The entry 3k3r is ON HOLD until Paper Publication

	Authors: Zhang, A.P.P., Pigli, Y.Z., Rice, P.A.		Authors: Zhang, A.P.P., Pigli, Y.Z., Rice, P.A.
Line 7:		Line 7:
	Description: Unrefined crystal structure of a LexA-DNA complex		Description: Unrefined crystal structure of a LexA-DNA complex

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Oct 14~~ 10:07:~~38 2009~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 7 10:18:14 2010''