6ayi - Revision history

OCA at 14:19, 13 March 2024

OCA — Wed, 13 Mar 2024 14:19:13 GMT

←Older revision		Revision as of 14:19, 13 March 2024
Line 1:		Line 1:

	==Escherichia coli GusR==		==Escherichia coli GusR==
-	<StructureSection load='6ayi' size='340' side='right' caption='[[6ayi]], [[Resolution\|resolution]] 2.09Å' scene=''>	+	<StructureSection load='6ayi' size='340' side='right'caption='[[6ayi]], [[Resolution\|resolution]] 2.09Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ayi]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Eco57 Eco57~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AYI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6AYI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ayi]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_O157:H7 Escherichia coli O157:H7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AYI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6AYI FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=C3G:4~~-~~nitrophenyl+beta-D-glucopyranosiduronic+acid'>C3G</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]] 2.09Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~uidR, Z2623, ECs2326 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=83334 ECO57])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C3G:4-nitrophenyl+beta-D-glucopyranosiduronic+acid'>C3G</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=6ayi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ayi OCA], [~~http~~://pdbe.org/6ayi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ayi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ayi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ayi 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=6ayi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ayi OCA], [https://pdbe.org/6ayi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ayi RCSB], [https://www.ebi.ac.uk/pdbsum/6ayi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ayi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~UIDR_ECO57 UIDR_ECO57]~~] Repressor for the uidRABC (gusRABC) operon.	+	[https://www.uniprot.org/uniprot/UIDR_ECOLI UIDR_ECOLI] Repressor for the uidRABC (gusRABC) operon.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The gut microbiota harbor diverse beta-glucuronidase (GUS) enzymes that liberate glucuronic acid (GlcA) sugars from small-molecule conjugates and complex carbohydrates. However, only the Enterobacteriaceae family of human gut-associated Proteobacteria maintain a GUS operon under the transcriptional control of a glucuronide repressor, GusR. Despite its potential importance in Escherichia, Salmonella, Klebsiella, Shigella, and Yersinia opportunistic pathogens, the structure of GusR has not been examined. Here, we explore the molecular basis for GusR-mediated regulation of GUS expression in response to small-molecule glucuronides. Presented are 2.1-A-resolution crystal structures of GusRs from Escherichia coli and Salmonella enterica in complexes with a glucuronide ligand. The GusR-specific DNA operator site in the regulatory region of the E. coli GUS operon is identified, and structure-guided GusR mutants pinpoint the residues essential for DNA binding and glucuronide recognition. Interestingly, the endobiotic estradiol-17-glucuronide and the xenobiotic indomethacin-acyl-glucuronide are found to exhibit markedly differential binding to these GusR orthologs. Using structure-guided mutations, we are able to transfer E. coli GusR's preferential DNA and glucuronide binding affinity to S. enterica GusR. Structures of putative GusR orthologs from GUS-encoding Firmicutes species also reveal functionally unique features of the Enterobacteriaceae GusRs. Finally, dominant-negative GusR variants are validated in cell-based studies. These data provide a molecular framework toward understanding the control of glucuronide utilization by opportunistic pathogens in the human gut.	+

-	Structural basis for the regulation of beta-glucuronidase expression by human gut Enterobacteriaceae.,Little MS, Pellock SJ, Walton WG, Tripathy A, Redinbo MR Proc Natl Acad Sci U S A. 2017 Dec 21. pii: 1716241115. doi:, 10.1073/pnas.1716241115. PMID:29269393<ref>PMID:29269393</ref>	+	==See Also==
-		+	*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6ayi" style="background-color:#fffaf0;"></div>~~	+
-	== ~~References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Eco57]]~~	+	[[Category: Escherichia coli O157:H7]]
-	~~[[Category~~: ~~Little, M S~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Pellock, S J~~]]	+	[[Category: Little MS]]
-	[[Category: ~~Dna binding protein~~]]	+	[[Category: Pellock SJ]]
-	[[Category: ~~Glucuronide binding protein]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcriptional repressor protein~~]]	+

OCA at 06:03, 3 January 2018

OCA — Wed, 03 Jan 2018 06:03:00 GMT

←Older revision		Revision as of 06:03, 3 January 2018
Line 3:		Line 3:
	<StructureSection load='6ayi' size='340' side='right' caption='[[6ayi]], [[Resolution\|resolution]] 2.09Å' scene=''>		<StructureSection load='6ayi' size='340' side='right' caption='[[6ayi]], [[Resolution\|resolution]] 2.09Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ayi]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AYI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ayi]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AYI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C3G:4-nitrophenyl+beta-D-glucopyranosiduronic+acid'>C3G</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C3G:4-nitrophenyl+beta-D-glucopyranosiduronic+acid'>C3G</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uidR, Z2623, ECs2326 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57])</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=6ayi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ayi OCA], [http://pdbe.org/6ayi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ayi RCSB], [http://www.ebi.ac.uk/pdbsum/6ayi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ayi 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=6ayi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ayi OCA], [http://pdbe.org/6ayi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ayi RCSB], [http://www.ebi.ac.uk/pdbsum/6ayi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ayi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/UIDR_ECO57 UIDR_ECO57]] Repressor for the uidRABC (gusRABC) operon.		[[http://www.uniprot.org/uniprot/UIDR_ECO57 UIDR_ECO57]] Repressor for the uidRABC (gusRABC) operon.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The gut microbiota harbor diverse beta-glucuronidase (GUS) enzymes that liberate glucuronic acid (GlcA) sugars from small-molecule conjugates and complex carbohydrates. However, only the Enterobacteriaceae family of human gut-associated Proteobacteria maintain a GUS operon under the transcriptional control of a glucuronide repressor, GusR. Despite its potential importance in Escherichia, Salmonella, Klebsiella, Shigella, and Yersinia opportunistic pathogens, the structure of GusR has not been examined. Here, we explore the molecular basis for GusR-mediated regulation of GUS expression in response to small-molecule glucuronides. Presented are 2.1-A-resolution crystal structures of GusRs from Escherichia coli and Salmonella enterica in complexes with a glucuronide ligand. The GusR-specific DNA operator site in the regulatory region of the E. coli GUS operon is identified, and structure-guided GusR mutants pinpoint the residues essential for DNA binding and glucuronide recognition. Interestingly, the endobiotic estradiol-17-glucuronide and the xenobiotic indomethacin-acyl-glucuronide are found to exhibit markedly differential binding to these GusR orthologs. Using structure-guided mutations, we are able to transfer E. coli GusR's preferential DNA and glucuronide binding affinity to S. enterica GusR. Structures of putative GusR orthologs from GUS-encoding Firmicutes species also reveal functionally unique features of the Enterobacteriaceae GusRs. Finally, dominant-negative GusR variants are validated in cell-based studies. These data provide a molecular framework toward understanding the control of glucuronide utilization by opportunistic pathogens in the human gut.
		+
		+	Structural basis for the regulation of beta-glucuronidase expression by human gut Enterobacteriaceae.,Little MS, Pellock SJ, Walton WG, Tripathy A, Redinbo MR Proc Natl Acad Sci U S A. 2017 Dec 21. pii: 1716241115. doi:, 10.1073/pnas.1716241115. PMID:29269393<ref>PMID:29269393</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ayi" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Eco57]]
	[[Category: Little, M S]]		[[Category: Little, M S]]
	[[Category: Pellock, S J]]		[[Category: Pellock, S J]]

OCA at 06:23, 20 December 2017

OCA — Wed, 20 Dec 2017 06:23:24 GMT

←Older revision		Revision as of 06:23, 20 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ayi is ~~ON HOLD until Paper Publication~~	+	==Escherichia coli GusR==
-		+	<StructureSection load='6ayi' size='340' side='right' caption='[[6ayi]], [[Resolution\|resolution]] 2.09Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ayi]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AYI FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C3G:4-nitrophenyl+beta-D-glucopyranosiduronic+acid'>C3G</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=6ayi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ayi OCA], [http://pdbe.org/6ayi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ayi RCSB], [http://www.ebi.ac.uk/pdbsum/6ayi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ayi ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/UIDR_ECO57 UIDR_ECO57]] Repressor for the uidRABC (gusRABC) operon.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Little, M S]]
		+	[[Category: Pellock, S J]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Glucuronide binding protein]]
		+	[[Category: Transcription]]
		+	[[Category: Transcriptional repressor protein]]

OCA at 05:43, 25 October 2017

OCA — Wed, 25 Oct 2017 05:43:51 GMT

←Older revision		Revision as of 05:43, 25 October 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ayi is ON HOLD	+	The entry 6ayi is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6ayi" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 16:57:36 GMT

Protected "6ayi" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:57, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 6ayi is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 16:57:35 GMT

New page: '''Unreleased structure''' The entry 6ayi is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6ayi is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]