4o8b - Revision history

OCA at 14:54, 8 November 2023

2023-11-08T14:54:48Z

←Older revision		Revision as of 14:54, 8 November 2023
Line 1:		Line 1:

	==Crystal structure of transcriptional regulator BswR==		==Crystal structure of transcriptional regulator BswR==
-	<StructureSection load='4o8b' size='340' side='right'caption='[[4o8b]]' scene=''>	+	<StructureSection load='4o8b' size='340' side='right'caption='[[4o8b]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8B FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4o8b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8B FirstGlance]. <br>
-	</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=4o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8b OCA], [https://pdbe.org/4o8b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8b RCSB], [https://www.ebi.ac.uk/pdbsum/4o8b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8b ProSAT]</span></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]] 2.3Å</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=4o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8b OCA], [https://pdbe.org/4o8b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8b RCSB], [https://www.ebi.ac.uk/pdbsum/4o8b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8b ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9I063_PSEAE Q9I063_PSEAE]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pseudomonas aeruginosa relies on cell motility and ability to form biofilms to establish infections; however, the mechanism of regulation remains obscure. Here we report that BswR, a xenobiotic response element-type transcriptional regulator, plays a critical role in regulation of bacterial motility and biofilm formation in P. aeruginosa. Transcriptomic and biochemical analyses showed that BswR counteracts the repressor activity of MvaT, controls the transcription of small RNA rsmZ and regulates the biogenesis of bacterial flagella. The crystal structure of BswR was determined at 2.3 A resolution; the monomer comprises a DNA-binding domain with a helix-turn-helix motif in the N terminus and two helices (alpha6 and alpha7) with a V-shaped arrangement in the C-terminus. In addition to the contacts between the parallel helices alpha5 of two monomers, the two helical extensions (alpha6 and alpha7) intertwine together to form a homodimer, which is the biological function unit. Based on the result of DNase I protection assay together with structural analysis of BswR homodimer, we proposed a BswR-DNA model, which suggests a molecular mechanism with which BswR could interact with DNA. Taken together, our results unveiled a novel regulatory mechanism, in which BswR controls the motility and biofilm formation of P. aeruginosa by modulating the transcription of small RNA rsmZ.
		+
		+	BswR controls bacterial motility and biofilm formation in Pseudomonas aeruginosa through modulation of the small RNA rsmZ.,Wang C, Ye F, Kumar V, Gao YG, Zhang LH Nucleic Acids Res. 2014 Feb 3. PMID:24497189<ref>PMID:24497189</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4o8b" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Pseudomonas aeruginosa PAO1]]
	[[Category: Gao YG]]		[[Category: Gao YG]]
	[[Category: Kumar V]]		[[Category: Kumar V]]

OCA at 10:51, 31 August 2022

2022-08-31T10:51:29Z

←Older revision		Revision as of 10:51, 31 August 2022
Line 1:		Line 1:

	==Crystal structure of transcriptional regulator BswR==		==Crystal structure of transcriptional regulator BswR==
-	<StructureSection load='4o8b' size='340' side='right'caption='[[4o8b]]~~, [[Resolution\|resolution]] 2.30Å~~' scene=''>	+	<StructureSection load='4o8b' size='340' side='right'caption='[[4o8b]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>~~[[4o8b]] is a 1 chain structure.~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8B FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8B FirstGlance]. <br>
	</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=4o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8b OCA], [https://pdbe.org/4o8b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8b RCSB], [https://www.ebi.ac.uk/pdbsum/4o8b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8b ProSAT]</span></td></tr>		</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=4o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8b OCA], [https://pdbe.org/4o8b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8b RCSB], [https://www.ebi.ac.uk/pdbsum/4o8b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8b ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Pseudomonas aeruginosa relies on cell motility and ability to form biofilms to establish infections; however, the mechanism of regulation remains obscure. Here we report that BswR, a xenobiotic response element-type transcriptional regulator, plays a critical role in regulation of bacterial motility and biofilm formation in P. aeruginosa. Transcriptomic and biochemical analyses showed that BswR counteracts the repressor activity of MvaT, controls the transcription of small RNA rsmZ and regulates the biogenesis of bacterial flagella. The crystal structure of BswR was determined at 2.3 A resolution; the monomer comprises a DNA-binding domain with a helix-turn-helix motif in the N terminus and two helices (alpha6 and alpha7) with a V-shaped arrangement in the C-terminus. In addition to the contacts between the parallel helices alpha5 of two monomers, the two helical extensions (alpha6 and alpha7) intertwine together to form a homodimer, which is the biological function unit. Based on the result of DNase I protection assay together with structural analysis of BswR homodimer, we proposed a BswR-DNA model, which suggests a molecular mechanism with which BswR could interact with DNA. Taken together, our results unveiled a novel regulatory mechanism, in which BswR controls the motility and biofilm formation of P. aeruginosa by modulating the transcription of small RNA rsmZ.
-
-	BswR controls bacterial motility and biofilm formation in Pseudomonas aeruginosa through modulation of the small RNA rsmZ.,Wang C, Ye F, Kumar V, Gao YG, Zhang LH Nucleic Acids Res. 2014 Feb 3. PMID:24497189<ref>PMID:24497189</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4o8b" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gao~~, Y G~~]]	+	[[Category: Gao YG]]
-	[[Category: Kumar, V]]	+	[[Category: Kumar V]]
-	[[Category: Wang, C]]	+	[[Category: Wang C]]
-	[[Category: Ye~~, F Z~~]]	+	[[Category: Ye FZ]]
-	[[Category: Zhang~~, L H]]~~	+	[[Category: Zhang LH]]
-	~~[[Category: Dna binding protein]]~~	+
-	~~[[Category: Hth motif]]~~	+
-	~~[[Category: Promoter dna]]~~	+
-	~~[[Category: Transcriptional activator~~]]	+

OCA at 05:05, 25 August 2022

2022-08-25T05:05:36Z

←Older revision		Revision as of 05:05, 25 August 2022
Line 1:		Line 1:

	==Crystal structure of transcriptional regulator BswR==		==Crystal structure of transcriptional regulator BswR==
-	<StructureSection load='4o8b' size='340' side='right' caption='[[4o8b]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='4o8b' size='340' side='right'caption='[[4o8b]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4o8b]] is a 1 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4O8B FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4o8b]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O8B FirstGlance]. <br>
-	</td></tr>~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PA2780 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=208964 PSEAE])</td></tr>~~	+	</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=4o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8b OCA], [https://pdbe.org/4o8b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o8b RCSB], [https://www.ebi.ac.uk/pdbsum/4o8b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8b 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=4o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8b OCA], [~~http~~://pdbe.org/4o8b PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4o8b RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4o8b PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8b ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pseae~~]]	+	[[Category: Large Structures]]
	[[Category: Gao, Y G]]		[[Category: Gao, Y G]]
	[[Category: Kumar, V]]		[[Category: Kumar, V]]

OCA at 11:39, 4 August 2016

2016-08-04T11:39:54Z

←Older revision		Revision as of 11:39, 4 August 2016
Line 1:		Line 1:
-	{{STRUCTURE_4o8b\| PDB=4o8b \| SCENE= }}
-	===Crystal structure of transcriptional regulator BswR===
-	{{ABSTRACT_PUBMED_24497189}}

-	==~~About this Structure~~==	+	==Crystal structure of transcriptional regulator BswR==
-	[[4o8b]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA].	+	<StructureSection load='4o8b' size='340' side='right' caption='[[4o8b]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4o8b]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O8B FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PA2780 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=208964 PSEAE])</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=4o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o8b OCA], [http://pdbe.org/4o8b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o8b RCSB], [http://www.ebi.ac.uk/pdbsum/4o8b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o8b ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pseudomonas aeruginosa relies on cell motility and ability to form biofilms to establish infections; however, the mechanism of regulation remains obscure. Here we report that BswR, a xenobiotic response element-type transcriptional regulator, plays a critical role in regulation of bacterial motility and biofilm formation in P. aeruginosa. Transcriptomic and biochemical analyses showed that BswR counteracts the repressor activity of MvaT, controls the transcription of small RNA rsmZ and regulates the biogenesis of bacterial flagella. The crystal structure of BswR was determined at 2.3 A resolution; the monomer comprises a DNA-binding domain with a helix-turn-helix motif in the N terminus and two helices (alpha6 and alpha7) with a V-shaped arrangement in the C-terminus. In addition to the contacts between the parallel helices alpha5 of two monomers, the two helical extensions (alpha6 and alpha7) intertwine together to form a homodimer, which is the biological function unit. Based on the result of DNase I protection assay together with structural analysis of BswR homodimer, we proposed a BswR-DNA model, which suggests a molecular mechanism with which BswR could interact with DNA. Taken together, our results unveiled a novel regulatory mechanism, in which BswR controls the motility and biofilm formation of P. aeruginosa by modulating the transcription of small RNA rsmZ.

-	~~==Reference==~~	+	BswR controls bacterial motility and biofilm formation in Pseudomonas aeruginosa through modulation of the small RNA rsmZ.,Wang C, Ye F, Kumar V, Gao YG, Zhang LH Nucleic Acids Res. 2014 Feb 3. PMID:24497189<ref>PMID:24497189</ref>
-	<ref ~~group="xtra"~~>PMID:~~024497189~~</ref><~~references group~~="~~xtra~~"/><references/>	+
-	[[Category: Gao, Y G.]]	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: Kumar, V.]]	+	</div>
-	[[Category: Wang, C.]]	+	<div class="pdbe-citations 4o8b" style="background-color:#fffaf0;"></div>
-	[[Category: Ye, F Z.]]	+	== References ==
-	[[Category: Zhang, L H.]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Pseae]]
		+	[[Category: Gao, Y G]]
		+	[[Category: Kumar, V]]
		+	[[Category: Wang, C]]
		+	[[Category: Ye, F Z]]
		+	[[Category: Zhang, L H]]
	[[Category: Dna binding protein]]		[[Category: Dna binding protein]]
	[[Category: Hth motif]]		[[Category: Hth motif]]
	[[Category: Promoter dna]]		[[Category: Promoter dna]]
	[[Category: Transcriptional activator]]		[[Category: Transcriptional activator]]

OCA at 05:08, 13 February 2014

2014-02-13T05:08:01Z

←Older revision		Revision as of 05:08, 13 February 2014
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4o8b\| PDB=4o8b \| SCENE= }}
		+	===Crystal structure of transcriptional regulator BswR===
		+	{{ABSTRACT_PUBMED_24497189}}

-	~~The entry~~ 4o8b is ~~ON HOLD~~	+	==About this Structure==
		+	[[4o8b]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O8B OCA].

-	~~Authors~~: Ye, ~~F.Z~~., Wang, C., ~~Kumar, V~~., Zhang, L.H.~~, Gao, Y.G.~~	+	==Reference==
-		+	<ref group="xtra">PMID:024497189</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of transcriptional regulator BswR~~	+	[[Category: Gao, Y G.]]
		+	[[Category: Kumar, V.]]
		+	[[Category: Wang, C.]]
		+	[[Category: Ye, F Z.]]
		+	[[Category: Zhang, L H.]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Hth motif]]
		+	[[Category: Promoter dna]]
		+	[[Category: Transcriptional activator]]

OCA: Protected "4o8b" [edit=sysop:move=sysop]

2014-01-08T09:27:42Z

Protected "4o8b" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:27, 8 January 2014

OCA: New page: '''Unreleased structure''' The entry 4o8b is ON HOLD Authors: Ye, F.Z., Wang, C., Kumar, V., Zhang, L.H., Gao, Y.G. Description: Crystal structure of transcriptional regulator BswR

2014-01-08T09:27:41Z

New page: '''Unreleased structure''' The entry 4o8b is ON HOLD Authors: Ye, F.Z., Wang, C., Kumar, V., Zhang, L.H., Gao, Y.G. Description: Crystal structure of transcriptional regulator BswR

New page

'''Unreleased structure'''

The entry 4o8b is ON HOLD

Authors: Ye, F.Z., Wang, C., Kumar, V., Zhang, L.H., Gao, Y.G.

Description: Crystal structure of transcriptional regulator BswR