2xdn - Revision history

OCA at 10:25, 9 May 2024

OCA — Thu, 09 May 2024 10:25:21 GMT

←Older revision		Revision as of 10:25, 9 May 2024
Line 3:		Line 3:
	<StructureSection load='2xdn' size='340' side='right'caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xdn' size='340' side='right'caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XDN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XDN 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;'>[[2uxo\|2uxo]]~~, [[~~2uxi~~\|~~2uxi~~]]~~, [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</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]] 2.2Å</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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [https://pdbe.org/2xdn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [https://www.ebi.ac.uk/pdbsum/2xdn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdn 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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [https://pdbe.org/2xdn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [https://www.ebi.ac.uk/pdbsum/2xdn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TTGR_PSEPT TTGR_PSEPT]] Represses expression from the ttgABC operon promoter and its own expression. Binds to a promoter region between the divergently transcribed ttgR and ttgABC genes/operons; in the presence of chloramphenicol or tetracycline this binding no longer occurs and ttgR and ttgABC are derepressed. This suggests that TtgR binds these antibiotics.<ref>PMID:11251828</ref>	+	[https://www.uniprot.org/uniprot/TTGR_PSEPT TTGR_PSEPT] Represses expression from the ttgABC operon promoter and its own expression. Binds to a promoter region between the divergently transcribed ttgR and ttgABC genes/operons; in the presence of chloramphenicol or tetracycline this binding no longer occurs and ttgR and ttgABC are derepressed. This suggests that TtgR binds these antibiotics.<ref>PMID:11251828</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Daniels, C]]	+	[[Category: Pseudomonas putida]]
-	[[Category: Lu, D]]	+	[[Category: Daniels C]]
-	[[Category: Ramos~~, J L~~]]	+	[[Category: Lu D]]
-	[[Category: Zhang, X]]	+	[[Category: Ramos JL]]
-	~~[[Category: Tetr family]]~~	+	[[Category: Zhang X]]
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription regulation~~]]	+

OCA at 10:50, 13 April 2022

OCA — Wed, 13 Apr 2022 10:50:35 GMT

←Older revision		Revision as of 10:50, 13 April 2022
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	<StructureSection load='2xdn' size='340' side='right'caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xdn' size='340' side='right'caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2XDN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XDN FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2uxo\|2uxo]], [[2uxi\|2uxi]], [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</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;'>[[2uxo\|2uxo]], [[2uxi\|2uxi]], [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</div></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [~~http~~://pdbe.org/2xdn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2xdn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdn 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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [https://pdbe.org/2xdn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [https://www.ebi.ac.uk/pdbsum/2xdn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TTGR_PSEPT TTGR_PSEPT]] Represses expression from the ttgABC operon promoter and its own expression. Binds to a promoter region between the divergently transcribed ttgR and ttgABC genes/operons; in the presence of chloramphenicol or tetracycline this binding no longer occurs and ttgR and ttgABC are derepressed. This suggests that TtgR binds these antibiotics.<ref>PMID:11251828</ref>	+	[[https://www.uniprot.org/uniprot/TTGR_PSEPT TTGR_PSEPT]] Represses expression from the ttgABC operon promoter and its own expression. Binds to a promoter region between the divergently transcribed ttgR and ttgABC genes/operons; in the presence of chloramphenicol or tetracycline this binding no longer occurs and ttgR and ttgABC are derepressed. This suggests that TtgR binds these antibiotics.<ref>PMID:11251828</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 2xdn" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2xdn" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:11, 8 July 2020

OCA — Wed, 08 Jul 2020 15:11:30 GMT

←Older revision		Revision as of 15:11, 8 July 2020
Line 1:		Line 1:

	==Transcription factor TtgR H67A mutant==		==Transcription factor TtgR H67A mutant==
-	<StructureSection load='2xdn' size='340' side='right' caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='2xdn' size='340' side='right'caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2XDN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2XDN FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2uxo\|2uxo]], [[2uxi\|2uxi]], [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2uxo\|2uxo]], [[2uxi\|2uxi]], [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [http://pdbe.org/2xdn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [http://www.ebi.ac.uk/pdbsum/2xdn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdn ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [http://pdbe.org/2xdn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [http://www.ebi.ac.uk/pdbsum/2xdn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus fluorescens putidus flugge 1886]]		[[Category: Bacillus fluorescens putidus flugge 1886]]
		+	[[Category: Large Structures]]
	[[Category: Daniels, C]]		[[Category: Daniels, C]]
	[[Category: Lu, D]]		[[Category: Lu, D]]

OCA at 09:17, 3 October 2018

OCA — Wed, 03 Oct 2018 09:17:27 GMT

←Older revision		Revision as of 09:17, 3 October 2018
Line 1:		Line 1:

-	==~~TRANSCRIPTION FACTOR TTGR~~ H67A ~~MUTANT~~==	+	==Transcription factor TtgR H67A mutant==
	<StructureSection load='2xdn' size='340' side='right' caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xdn' size='340' side='right' caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xd/2xdn_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xd/2xdn_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 11:12, 4 August 2016

OCA — Thu, 04 Aug 2016 11:12:10 GMT

←Older revision		Revision as of 11:12, 4 August 2016
Line 1:		Line 1:
		+
	==TRANSCRIPTION FACTOR TTGR H67A MUTANT==		==TRANSCRIPTION FACTOR TTGR H67A MUTANT==
	<StructureSection load='2xdn' size='340' side='right' caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xdn' size='340' side='right' caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_putida Pseudomonas putida~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XDN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XDN FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2uxo\|2uxo]], [[2uxi\|2uxi]], [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2uxo\|2uxo]], [[2uxi\|2uxi]], [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [http://www.ebi.ac.uk/pdbsum/2xdn 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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [http://pdbe.org/2xdn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [http://www.ebi.ac.uk/pdbsum/2xdn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xdn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~TTGR_PSEPU TTGR_PSEPU~~]] Represses expression from the ttgABC operon promoter and its own expression. Binds to a promoter region between the divergently transcribed ttgR and ttgABC genes/operons; in the presence of chloramphenicol or tetracycline this binding no longer occurs and ttgR and ttgABC are derepressed. This suggests that TtgR binds these antibiotics.<ref>PMID:11251828</ref>	+	[[http://www.uniprot.org/uniprot/TTGR_PSEPT TTGR_PSEPT]] Represses expression from the ttgABC operon promoter and its own expression. Binds to a promoter region between the divergently transcribed ttgR and ttgABC genes/operons; in the presence of chloramphenicol or tetracycline this binding no longer occurs and ttgR and ttgABC are derepressed. This suggests that TtgR binds these antibiotics.<ref>PMID:11251828</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 16:		Line 17:
	<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=2xdn ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 27:
	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 2xdn" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pseudomonas putida~~]]	+	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Daniels, C]]		[[Category: Daniels, C]]
	[[Category: Lu, D]]		[[Category: Lu, D]]

OCA at 08:43, 25 December 2014

OCA — Thu, 25 Dec 2014 08:43:27 GMT

←Older revision		Revision as of 08:43, 25 December 2014
Line 6:		Line 6:
	<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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [http://www.ebi.ac.uk/pdbsum/2xdn 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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [http://www.ebi.ac.uk/pdbsum/2xdn PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TTGR_PSEPU TTGR_PSEPU]] Represses expression from the ttgABC operon promoter and its own expression. Binds to a promoter region between the divergently transcribed ttgR and ttgABC genes/operons; in the presence of chloramphenicol or tetracycline this binding no longer occurs and ttgR and ttgABC are derepressed. This suggests that TtgR binds these antibiotics.<ref>PMID:11251828</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 29:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
-	[[Category: Daniels, C.]]	+	[[Category: Daniels, C]]
-	[[Category: Lu, D.]]	+	[[Category: Lu, D]]
-	[[Category: Ramos, J L.]]	+	[[Category: Ramos, J L]]
-	[[Category: Zhang, X.]]	+	[[Category: Zhang, X]]
	[[Category: Tetr family]]		[[Category: Tetr family]]
	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]

OCA at 13:12, 22 October 2014

OCA — Wed, 22 Oct 2014 13:12:49 GMT

←Older revision		Revision as of 13:12, 22 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2xdn.~~png~~\|~~left~~\|200px]]	+	==TRANSCRIPTION FACTOR TTGR H67A MUTANT==
		+	<StructureSection load='2xdn' size='340' side='right' caption='[[2xdn]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2xdn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XDN FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2uxo\|2uxo]], [[2uxi\|2uxi]], [[2uxh\|2uxh]], [[2uxu\|2uxu]], [[2uxp\|2uxp]]</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=2xdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xdn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xdn RCSB], [http://www.ebi.ac.uk/pdbsum/2xdn 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/xd/2xdn_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 ==
		+	A major mechanism of antibiotic resistance in bacteria is the active extrusion of toxic compounds through membrane-bound efflux pumps. The TtgR protein represses transcription of ttgABC, a key efflux pump in Pseudomonas putida DOT-T1E capable of extruding antibiotics, solvents, and flavonoids. TtgR contains two distinct and overlapping ligand binding sites, one is broad and contains mainly hydrophobic residues, whereas the second is deep and contains polar residues. Mutants in the ligand binding pockets were generated and characterized using electrophoretic mobility shift assays, isothermal titration calorimetry, and promoter expression. Several mutants were affected in their response to effectors in vitro: mutants H70A, H72A, and R75A did not dissociate from promoter DNA in the presence of chloramphenicol. Other mutants exhibited altered binding to the operator: L66A and L66AV96A mutants bound 3- and 15-fold better than the native protein, whereas the H67A mutant bound with 3-fold lower affinity. In vivo expression assays using a fusion of the promoter of ttgA to lacZ and antibiotic tolerance correlated with the in vitro observations, namely that mutant H67A leads to increased basal expression levels and enhances antibiotic tolerance, whereas mutants L66A and L66AV96A exhibit lower basal expression levels and decreased resistance to antibiotics. The crystal structure of TtgR H67A was resolved. The data provide evidence for the inter-domain communication that is predicted to be required for the transmission of the effector binding signal to the DNA binding domain and provide important information to understand TtgR/DNA/effector interactions.

-	~~{{STRUCTURE_2xdn\| PDB=2xdn \| SCENE= }}~~	+	Domain cross-talk during effector binding to the multidrug binding TTGR regulator.,Daniels C, Daddaoua A, Lu D, Zhang X, Ramos JL J Biol Chem. 2010 Jul 9;285(28):21372-81. Epub 2010 Apr 30. PMID:20435893<ref>PMID:20435893</ref>

-	~~===TRANSCRIPTION FACTOR TTGR H67A MUTANT===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20435893}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2xdn]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudomonas_putida Pseudomonas putida]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:020435893<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
	[[Category: Daniels, C.]]		[[Category: Daniels, C.]]

OCA: Protected "2xdn" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 20:03:41 GMT

Protected "2xdn" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:03, 7 January 2013

OCA at 20:03, 7 January 2013

OCA — Mon, 07 Jan 2013 20:03:35 GMT

←Older revision		Revision as of 20:03, 7 January 2013
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-	{{Seed}}
	[[Image:2xdn.png\|left\|200px]]		[[Image:2xdn.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2xdn", 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_2xdn\| PDB=2xdn \| SCENE= }}		{{STRUCTURE_2xdn\| PDB=2xdn \| SCENE= }}

	===TRANSCRIPTION FACTOR TTGR H67A MUTANT===		===TRANSCRIPTION FACTOR TTGR H67A MUTANT===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20435893}}, adds the Publication Abstract to the page
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	{{ABSTRACT_PUBMED_20435893}}		{{ABSTRACT_PUBMED_20435893}}

	==About this Structure==		==About this Structure==
-	~~2XDN~~ is a 4 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA].	+	[[2xdn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XDN OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20435893~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020435893</ref><references group="xtra"/>
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
	[[Category: Daniels, C.]]		[[Category: Daniels, C.]]
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	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]
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-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 14 15:55:06 2010''

OCA at 11:48, 14 July 2010

OCA — Wed, 14 Jul 2010 11:48:57 GMT

←Older revision		Revision as of 11:48, 14 July 2010
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-	[[Image:2xdn.~~jpg~~\|left\|200px]]	+	[[Image:2xdn.png\|left\|200px]]

	<!--		<!--
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	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~May 12 11~~:00:34 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 14 15:55:06 2010''