5mru - Revision history

OCA at 17:47, 8 November 2023

OCA — Wed, 08 Nov 2023 17:47:40 GMT

←Older revision		Revision as of 17:47, 8 November 2023
Line 3:		Line 3:
	<StructureSection load='5mru' size='340' side='right'caption='[[5mru]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='5mru' size='340' side='right'caption='[[5mru]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mru]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Achromobacter_georgiopolitanum Achromobacter georgiopolitanum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MRU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5MRU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mru]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_sp. Pseudomonas sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MRU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MRU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TDC:5A,6-ANHYDROTETRACYCLINE'>TDC</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.55Å</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=5mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mru OCA], [~~http~~://pdbe.org/5mru PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mru RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mru PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mru ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TDC:5A,6-ANHYDROTETRACYCLINE'>TDC</scene></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=5mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mru OCA], [https://pdbe.org/5mru PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mru RCSB], [https://www.ebi.ac.uk/pdbsum/5mru PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mru ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/TETR1_ECOLX TETR1_ECOLX] TetR is the repressor of the tetracycline resistance element; its N-terminal region forms a helix-turn-helix structure and binds DNA. Binding of tetracycline to TetR reduces the repressor affinity for the tetracycline resistance gene (tetA) promoter operator sites.
-	~~Induction of the tetracycline repressor (~~TetR~~) results from antibiotic-dependent changes in~~ the ~~relative positioning of the DNA-binding domains within the promoter-associated~~ repressor ~~dimer, but the key determinants of this allosteric effect remain poorly characterised. Intriguingly, previous mutational analyses~~ of the tetracycline-~~interacting site revealed~~ a lack of correlation between residual affinity and induction propensity, suggesting that some of the residues in contact with the antibiotic primarily act in ligand recognition and retention, whereas others are required to transmit the allosteric signal. Here, we provide a structural basis for these observations via crystallographic analysis of the point mutants N82A, H100A, T103A and E147A in complex with the inducer 5a,6-~~anhydrotetracycline. In conjunction with the available functional data, the four structures demonstrate that a trigger~~-~~like movement of the region between helices alpha6~~ and ~~alpha7 towards and into the binding site plays a decisive role in the intramolecular communication process~~. ~~In sharp contrast, residues lining the binding cavity proper have little or no influence on the allosteric mechanism as such. This nearly complete physical separation~~ of ~~ligand recognition and allostery will have allowed diverging~~ TetR~~-like repressors to bind novel effectors while~~ the ~~existing induction mechanism remained intact. Consequently, the modularity described here may have been a key factor in the evolutionary success of the widespread and highly diversified~~ repressor ~~class. DATABASE: Structural data are available in the Protein Data Bank under the accession numbers 5FKK, 5FKL, 5FKM, 5FKN and 5FKO.~~	+
-		+
-	~~Modular organisation of inducer recognition and allostery in~~ the tetracycline ~~repressor~~.~~,Werten S, Schneider J, Palm GJ, Hinrichs W FEBS J. 2016 Mar 30. doi: 10.1111/febs.13723. PMID:27028290<ref>PMID:27028290</ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5mru" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]		*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Achromobacter georgiopolitanum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hinrichs, W~~]]	+	[[Category: Pseudomonas sp]]
-	[[Category: ~~Palm, G J~~]]	+	[[Category: Hinrichs W]]
-	[[Category: ~~Helix-turn-helix]]~~	+	[[Category: Palm GJ]]
-	~~[[Category: Repressor]]~~	+
-	~~[[Category: Tetracycline]]~~	+
-	~~[[Category: Transcription~~]]	+

OCA at 07:27, 19 August 2020

OCA — Wed, 19 Aug 2020 07:27:31 GMT

←Older revision		Revision as of 07:27, 19 August 2020
Line 1:		Line 1:

	==TetR(class A) in complex with 5a,6-anhydrotetracycline and magnesium==		==TetR(class A) in complex with 5a,6-anhydrotetracycline and magnesium==
-	<StructureSection load='5mru' size='340' side='right' caption='[[5mru]], [[Resolution\|resolution]] 2.55Å' scene=''>	+	<StructureSection load='5mru' size='340' side='right'caption='[[5mru]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mru]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Achromobacter_georgiopolitanum Achromobacter georgiopolitanum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MRU OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MRU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mru]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Achromobacter_georgiopolitanum Achromobacter georgiopolitanum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MRU OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5MRU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TDC:5A,6-ANHYDROTETRACYCLINE'>TDC</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TDC:5A,6-ANHYDROTETRACYCLINE'>TDC</scene></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=5mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mru OCA], [http://pdbe.org/5mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mru RCSB], [http://www.ebi.ac.uk/pdbsum/5mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mru 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=5mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mru OCA], [http://pdbe.org/5mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mru RCSB], [http://www.ebi.ac.uk/pdbsum/5mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mru ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 16:
	</div>		</div>
	<div class="pdbe-citations 5mru" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5mru" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 21:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Achromobacter georgiopolitanum]]		[[Category: Achromobacter georgiopolitanum]]
		+	[[Category: Large Structures]]
	[[Category: Hinrichs, W]]		[[Category: Hinrichs, W]]
	[[Category: Palm, G J]]		[[Category: Palm, G J]]

OCA at 05:49, 25 April 2018

OCA — Wed, 25 Apr 2018 05:49:45 GMT

←Older revision		Revision as of 05:49, 25 April 2018
Line 3:		Line 3:
	<StructureSection load='5mru' size='340' side='right' caption='[[5mru]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='5mru' size='340' side='right' caption='[[5mru]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mru]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MRU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MRU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mru]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Achromobacter_georgiopolitanum Achromobacter georgiopolitanum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MRU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MRU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TDC:5A,6-ANHYDROTETRACYCLINE'>TDC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TDC:5A,6-ANHYDROTETRACYCLINE'>TDC</scene></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=5mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mru OCA], [http://pdbe.org/5mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mru RCSB], [http://www.ebi.ac.uk/pdbsum/5mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mru 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=5mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mru OCA], [http://pdbe.org/5mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mru RCSB], [http://www.ebi.ac.uk/pdbsum/5mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mru ProSAT]</span></td></tr>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Achromobacter georgiopolitanum]]
	[[Category: Hinrichs, W]]		[[Category: Hinrichs, W]]
	[[Category: Palm, G J]]		[[Category: Palm, G J]]

OCA at 06:48, 17 January 2018

OCA — Wed, 17 Jan 2018 06:48:22 GMT

←Older revision		Revision as of 06:48, 17 January 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5mru is ~~ON HOLD until Dec 26 2018~~	+	==TetR(class A) in complex with 5a,6-anhydrotetracycline and magnesium==
		+	<StructureSection load='5mru' size='340' side='right' caption='[[5mru]], [[Resolution\|resolution]] 2.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5mru]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MRU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MRU FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TDC:5A,6-ANHYDROTETRACYCLINE'>TDC</scene></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=5mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mru OCA], [http://pdbe.org/5mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mru RCSB], [http://www.ebi.ac.uk/pdbsum/5mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mru ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Induction of the tetracycline repressor (TetR) results from antibiotic-dependent changes in the relative positioning of the DNA-binding domains within the promoter-associated repressor dimer, but the key determinants of this allosteric effect remain poorly characterised. Intriguingly, previous mutational analyses of the tetracycline-interacting site revealed a lack of correlation between residual affinity and induction propensity, suggesting that some of the residues in contact with the antibiotic primarily act in ligand recognition and retention, whereas others are required to transmit the allosteric signal. Here, we provide a structural basis for these observations via crystallographic analysis of the point mutants N82A, H100A, T103A and E147A in complex with the inducer 5a,6-anhydrotetracycline. In conjunction with the available functional data, the four structures demonstrate that a trigger-like movement of the region between helices alpha6 and alpha7 towards and into the binding site plays a decisive role in the intramolecular communication process. In sharp contrast, residues lining the binding cavity proper have little or no influence on the allosteric mechanism as such. This nearly complete physical separation of ligand recognition and allostery will have allowed diverging TetR-like repressors to bind novel effectors while the existing induction mechanism remained intact. Consequently, the modularity described here may have been a key factor in the evolutionary success of the widespread and highly diversified repressor class. DATABASE: Structural data are available in the Protein Data Bank under the accession numbers 5FKK, 5FKL, 5FKM, 5FKN and 5FKO.

-	~~Authors: Hinrichs, W~~., Palm, G.J.	+	Modular organisation of inducer recognition and allostery in the tetracycline repressor.,Werten S, Schneider J, Palm GJ, Hinrichs W FEBS J. 2016 Mar 30. doi: 10.1111/febs.13723. PMID:27028290<ref>PMID:27028290</ref>

-	~~Description: TetR(class A) in complex with 5a~~,~~6-anhydrotetracycline and magnesium~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 5mru" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Hinrichs, W]]		[[Category: Hinrichs, W]]
-	[[Category: Palm, G.J]]	+	[[Category: Palm, G J]]
		+	[[Category: Helix-turn-helix]]
		+	[[Category: Repressor]]
		+	[[Category: Tetracycline]]
		+	[[Category: Transcription]]

OCA at 11:09, 27 September 2017

OCA — Wed, 27 Sep 2017 11:09:07 GMT

←Older revision		Revision as of 11:09, 27 September 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5mru is ON HOLD until ~~sometime in the future~~	+	The entry 5mru is ON HOLD until Dec 26 2018

	Authors: Hinrichs, W., Palm, G.J.		Authors: Hinrichs, W., Palm, G.J.

-	Description: TetR(class A)in complex with 5a,6-anhydrotetracycline and magnesium	+	Description: TetR(class A) in complex with 5a,6-anhydrotetracycline and magnesium
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Hinrichs, W]]		[[Category: Hinrichs, W]]
	[[Category: Palm, G.J]]		[[Category: Palm, G.J]]

OCA at 13:08, 18 January 2017

OCA — Wed, 18 Jan 2017 13:08:00 GMT

←Older revision		Revision as of 13:08, 18 January 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5mru is ON HOLD	+	The entry 5mru is ON HOLD until sometime in the future

	Authors: Hinrichs, W., Palm, G.J.		Authors: Hinrichs, W., Palm, G.J.

OCA: Protected "5mru" [edit=sysop:move=sysop]

OCA — Wed, 04 Jan 2017 14:19:50 GMT

Protected "5mru" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:19, 4 January 2017

OCA: New page: '''Unreleased structure''' The entry 5mru is ON HOLD Authors: Hinrichs, W., Palm, G.J. Description: TetR(class A)in complex with 5a,6-anhydrotetracycline and magnesium [[Category: Unre...

OCA — Wed, 04 Jan 2017 14:19:48 GMT

New page: '''Unreleased structure''' The entry 5mru is ON HOLD Authors: Hinrichs, W., Palm, G.J. Description: TetR(class A)in complex with 5a,6-anhydrotetracycline and magnesium [[Category: Unre...

New page

'''Unreleased structure'''

The entry 5mru is ON HOLD

Authors: Hinrichs, W., Palm, G.J.

Description: TetR(class A)in complex with 5a,6-anhydrotetracycline and magnesium
[[Category: Unreleased Structures]]
[[Category: Hinrichs, W]]
[[Category: Palm, G.J]]