6f8h - Revision history

OCA at 12:26, 9 May 2024

OCA — Thu, 09 May 2024 12:26:13 GMT

←Older revision		Revision as of 12:26, 9 May 2024
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	<StructureSection load='6f8h' size='340' side='right'caption='[[6f8h]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='6f8h' size='340' side='right'caption='[[6f8h]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6f8h]] 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=6F8H OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6F8H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6f8h]] 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=6F8H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6F8H FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>AYO08_18510 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~303~~ "~~Bacillus fluorescens putidus~~" ~~Flugge 1886~~])</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]] 2.002Å</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=6f8h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f8h OCA], [~~http~~://pdbe.org/6f8h PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6f8h RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6f8h PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6f8h 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=6f8h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f8h OCA], [https://pdbe.org/6f8h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6f8h RCSB], [https://www.ebi.ac.uk/pdbsum/6f8h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6f8h ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Loris, R~~]]	+	[[Category: Pseudomonas putida]]
-	[[Category: ~~Talavera, A~~]]	+	[[Category: Loris R]]
-	[[Category: ~~Antitoxin]]~~	+	[[Category: Talavera A]]
-	~~[[Category: Graa]]~~	+
-	~~[[Category: Higa~~]]	+

OCA at 12:38, 13 March 2019

OCA — Wed, 13 Mar 2019 12:38:44 GMT

←Older revision		Revision as of 12:38, 13 March 2019
Line 1:		Line 1:

	==antitoxin GraA==		==antitoxin GraA==
-	<StructureSection load='6f8h' size='340' side='right' caption='[[6f8h]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='6f8h' size='340' side='right'caption='[[6f8h]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6f8h]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6F8H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6F8H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6f8h]] 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=6F8H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6F8H FirstGlance]. <br>
-	</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=6f8h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f8h OCA], [http://pdbe.org/6f8h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6f8h RCSB], [http://www.ebi.ac.uk/pdbsum/6f8h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6f8h ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AYO08_18510 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</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=6f8h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f8h OCA], [http://pdbe.org/6f8h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6f8h RCSB], [http://www.ebi.ac.uk/pdbsum/6f8h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6f8h ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
-	~~The graTA operon from Pseudomonas putida encodes a~~ toxin-antitoxin ~~module with an unusually moderate toxin~~. ~~Here,~~ the ~~production, SAXS analysis~~ and ~~crystallization of~~ the antitoxin GraA~~, the GraTA complex~~ and the ~~complex of GraA with~~ a ~~33 bp operator fragment are reported~~. GraA ~~forms a homodimer in solution and crystallizes in space group P21, with unit~~-~~cell parameters a = 66.9, b = 48.9, c = 62.7 A, beta = 92.6 degrees . The crystals are likely to contain~~ two GraA dimers in the ~~asymmetric unit and diffract~~ to ~~1.9 A resolution. The GraTA complex forms~~ a ~~heterotetramer in solution. Crystals~~ of the ~~GraTA~~ complex ~~diffracted~~ to 2.~~2 A resolution~~ and ~~are most likely to contain a single heterotetrameric~~ GraTA ~~complex in the asymmetric unit. They belong to space group P41 or P43, with unit-cell parameters~~ a ~~= b = 56.0, c = 128.2 A. The GraA-operator complex consists of~~ a ~~33 bp operator~~ region ~~that binds two GraA dimers. It crystallizes~~ in ~~space group P31 or P32, with unit-cell parameters a = b = 105.6, c = 149.9 A. These crystals diffract to 3.8 A resolution~~.	+	Bacterial toxin-antitoxin (TA) modules are tightly regulated to maintain growth in favorable conditions or growth arrest during stress. A typical regulatory strategy involves the antitoxin binding and repressing its own promoter while the toxin often acts as a co-repressor. Here we show that Pseudomonas putida graTA-encoded antitoxin GraA and toxin GraT differ from other TA proteins in the sense that not the antitoxin but the toxin possesses a flexible region. GraA auto-represses the graTA promoter: two GraA dimers bind cooperatively at opposite sides of the operator sequence. Contrary to other TA modules, GraT is a de-repressor of the graTA promoter as its N-terminal disordered segment prevents the binding of the GraT2A2 complex to the operator. Removal of this region restores operator binding and abrogates Gr aT toxicity. GraTA represents a TA module where a flexible region in the toxin rather than in the antitoxin controls operon expression and toxin activity.

-	~~Production, biophysical characterization~~ and ~~crystallization~~ of ~~Pseudomonas putida GraA and its complexes with GraT and~~ the ~~graTA operator~~.,Talavera A, Tamman H, Ainelo A, ~~Hadaei~~ S, Garcia-Pino A, Horak R~~, Konijnenberg A~~, Loris R ~~Acta Crystallogr F Struct Biol~~ Commun. ~~2017 Aug 1~~;73(~~Pt 8~~):~~455-462~~. doi:, 10.~~1107~~/~~S2053230X17009438. Epub 2017 Jul 26~~. PMID:~~28777088~~<ref>PMID:~~28777088~~</ref>	+	A dual role in regulation and toxicity for the disordered N-terminus of the toxin GraT.,Talavera A, Tamman H, Ainelo A, Konijnenberg A, Hadzi S, Sobott F, Garcia-Pino A, Horak R, Loris R Nat Commun. 2019 Feb 27;10(1):972. doi: 10.1038/s41467-019-08865-z. PMID:30814507<ref>PMID:30814507</ref>

	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>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus fluorescens putidus flugge 1886]]
		+	[[Category: Large Structures]]
	[[Category: Loris, R]]		[[Category: Loris, R]]
	[[Category: Talavera, A]]		[[Category: Talavera, A]]

OCA at 08:17, 30 January 2019

OCA — Wed, 30 Jan 2019 08:17:59 GMT

←Older revision		Revision as of 08:17, 30 January 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6f8h is ~~ON HOLD~~	+	==antitoxin GraA==
		+	<StructureSection load='6f8h' size='340' side='right' caption='[[6f8h]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6f8h]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6F8H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6F8H FirstGlance]. <br>
		+	</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=6f8h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f8h OCA], [http://pdbe.org/6f8h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6f8h RCSB], [http://www.ebi.ac.uk/pdbsum/6f8h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6f8h ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The graTA operon from Pseudomonas putida encodes a toxin-antitoxin module with an unusually moderate toxin. Here, the production, SAXS analysis and crystallization of the antitoxin GraA, the GraTA complex and the complex of GraA with a 33 bp operator fragment are reported. GraA forms a homodimer in solution and crystallizes in space group P21, with unit-cell parameters a = 66.9, b = 48.9, c = 62.7 A, beta = 92.6 degrees . The crystals are likely to contain two GraA dimers in the asymmetric unit and diffract to 1.9 A resolution. The GraTA complex forms a heterotetramer in solution. Crystals of the GraTA complex diffracted to 2.2 A resolution and are most likely to contain a single heterotetrameric GraTA complex in the asymmetric unit. They belong to space group P41 or P43, with unit-cell parameters a = b = 56.0, c = 128.2 A. The GraA-operator complex consists of a 33 bp operator region that binds two GraA dimers. It crystallizes in space group P31 or P32, with unit-cell parameters a = b = 105.6, c = 149.9 A. These crystals diffract to 3.8 A resolution.

-	~~Authors:~~ Talavera, A., ~~Loris~~, R.	+	Production, biophysical characterization and crystallization of Pseudomonas putida GraA and its complexes with GraT and the graTA operator.,Talavera A, Tamman H, Ainelo A, Hadaei S, Garcia-Pino A, Horak R, Konijnenberg A, Loris R Acta Crystallogr F Struct Biol Commun. 2017 Aug 1;73(Pt 8):455-462. doi:, 10.1107/S2053230X17009438. Epub 2017 Jul 26. PMID:28777088<ref>PMID:28777088</ref>

-	~~Description: antitoxin GraA~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 6f8h" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Loris, R]]		[[Category: Loris, R]]
	[[Category: Talavera, A]]		[[Category: Talavera, A]]
		+	[[Category: Antitoxin]]
		+	[[Category: Graa]]
		+	[[Category: Higa]]

OCA: Protected "6f8h" [edit=sysop:move=sysop]

OCA — Wed, 20 Dec 2017 05:12:03 GMT

Protected "6f8h" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:12, 20 December 2017

OCA: New page: '''Unreleased structure''' The entry 6f8h is ON HOLD Authors: Talavera, A., Loris, R. Description: antitoxin GraA Category: Unreleased Structures Category: Loris, R [[Category:...

OCA — Wed, 20 Dec 2017 05:12:02 GMT

New page: '''Unreleased structure''' The entry 6f8h is ON HOLD Authors: Talavera, A., Loris, R. Description: antitoxin GraA Category: Unreleased Structures Category: Loris, R [[Category:...

New page

'''Unreleased structure'''

The entry 6f8h is ON HOLD

Authors: Talavera, A., Loris, R.

Description: antitoxin GraA
[[Category: Unreleased Structures]]
[[Category: Loris, R]]
[[Category: Talavera, A]]