5m7p - Revision history

OCA at 18:28, 1 November 2023

OCA — Wed, 01 Nov 2023 18:28:57 GMT

←Older revision		Revision as of 18:28, 1 November 2023
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	<StructureSection load='5m7p' size='340' side='right'caption='[[5m7p]], [[Resolution\|resolution]] 2.36Å' scene=''>		<StructureSection load='5m7p' size='340' side='right'caption='[[5m7p]], [[Resolution\|resolution]] 2.36Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5m7p]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Brucella_abortus_2308_a~~ Brucella abortus 2308 a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M7P OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5M7P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5m7p]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Brucella_abortus_str._2308_A Brucella abortus str. 2308 A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M7P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5M7P FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ADP:ADENOSINE~~-~~5-DIPHOSPHATE'>ADP</scene>~~, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.36Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~BAAA_2000042 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=5~~&id~~=~~641140 Brucella abortus 2308 A])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=5m7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m7p OCA], [~~http~~://pdbe.org/5m7p PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5m7p RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5m7p PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5m7p 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=5m7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m7p OCA], [https://pdbe.org/5m7p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5m7p RCSB], [https://www.ebi.ac.uk/pdbsum/5m7p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5m7p ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C4IRH0_BRUAO C4IRH0_BRUAO]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Brucella abortus 2308 a]]	+	[[Category: Brucella abortus str. 2308 A]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Carrica~~, M C~~]]	+	[[Category: Carrica MC]]
-	[[Category: Cornaciu, I]]	+	[[Category: Cornaciu I]]
-	[[Category: Fernandez, I]]	+	[[Category: Fernandez I]]
-	[[Category: Goldbaum~~, F A~~]]	+	[[Category: Goldbaum FA]]
-	[[Category: Hoffmann, G]]	+	[[Category: Hoffmann G]]
-	[[Category: Marquez~~, J A]]~~	+	[[Category: Marquez JA]]
-	~~[[Category: Brucellosis]]~~	+
-	~~[[Category: Crystaldirect]]~~	+
-	~~[[Category: Signaling protein]]~~	+
-	~~[[Category: Two-component system~~]]	+

OCA at 07:10, 19 August 2020

OCA — Wed, 19 Aug 2020 07:10:38 GMT

←Older revision		Revision as of 07:10, 19 August 2020
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	==Crystal structure of NtrX from Brucella abortus in complex with ADP processed with the CrystalDirect automated mounting and cryo-cooling technology==		==Crystal structure of NtrX from Brucella abortus in complex with ADP processed with the CrystalDirect automated mounting and cryo-cooling technology==
-	<StructureSection load='5m7p' size='340' side='right' caption='[[5m7p]], [[Resolution\|resolution]] 2.36Å' scene=''>	+	<StructureSection load='5m7p' size='340' side='right'caption='[[5m7p]], [[Resolution\|resolution]] 2.36Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5m7p]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M7P OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5M7P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5m7p]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brucella_abortus_2308_a Brucella abortus 2308 a]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M7P OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5M7P FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=5m7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m7p OCA], [http://pdbe.org/5m7p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5m7p RCSB], [http://www.ebi.ac.uk/pdbsum/5m7p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5m7p ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAAA_2000042 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=641140 Brucella abortus 2308 A])</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=5m7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m7p OCA], [http://pdbe.org/5m7p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5m7p RCSB], [http://www.ebi.ac.uk/pdbsum/5m7p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5m7p 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: Brucella abortus 2308 a]]
		+	[[Category: Large Structures]]
	[[Category: Carrica, M C]]		[[Category: Carrica, M C]]
	[[Category: Cornaciu, I]]		[[Category: Cornaciu, I]]

OCA at 23:34, 25 January 2017

OCA — Wed, 25 Jan 2017 23:34:39 GMT

←Older revision		Revision as of 23:34, 25 January 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5m7p is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of NtrX from Brucella abortus in complex with ADP processed with the CrystalDirect automated mounting and cryo-cooling technology==
		+	<StructureSection load='5m7p' size='340' side='right' caption='[[5m7p]], [[Resolution\|resolution]] 2.36Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5m7p]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M7P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5M7P FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=5m7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m7p OCA], [http://pdbe.org/5m7p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5m7p RCSB], [http://www.ebi.ac.uk/pdbsum/5m7p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5m7p ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacteria sense and adapt to environmental changes using two-component systems (TCS). These signaling pathways are formed by a histidine kinase (HK) that phosphorylates a response regulator (RR), which finally modulates the transcription of target genes. The bacterium Brucella abortus codes for a TCS formed by the HK NtrY and the RR NtrX that participates in sensing low oxygen tension and in generating an adaptive response. NtrX is a modular protein with REC, AAA+ and DNA binding domains, an architecture that classifies it among the NtrC subfamily of RRs. However, it lacks the signature GAFTGA motif that is essential for activating transcription by the mechanism proposed for canonical members of this subfamily. In this article we present the first crystal structure of full-length NtrX, which is also the first structure of a full-length NtrC-like RR with all the domains solved, showing that the protein is structurally similar to other members of the subfamily. We also report that NtrX binds nucleotides and the structures of the protein bound to ATP and ADP. Despite binding ATP, NtrX does not have ATPase activity and does not form oligomers in response to phosphorylation or nucleotide binding. We also identify a nucleotide sequence recognized by NtrX that allows it to bind to a promoter region that regulates its own transcription and to establish a negative feedback mechanism to modulate its expression. Overall, this article provides a detailed description of the NtrX RR and supports that it functions by a mechanism different to classical NtrC-like RRs.

-	~~Authors: Cornaciu~~, I., Fernandez, I., ~~Hoffmann~~, G., ~~Carrica~~, ~~M.C.~~, Goldbaum~~, F~~.A., ~~Marquez, J~~.A.	+	Three-dimensional structure of full-length NtrX, an unusual member of the NtrC family of response regulators.,Fernandez I, Cornaciu I, Del Carmen Carrica M, Uchikawa E, Hoffmann G, Sieira R, Marquez JA, Goldbaum FA J Mol Biol. 2017 Jan 11. pii: S0022-2836(17)30013-X. doi:, 10.1016/j.jmb.2016.12.022. PMID:28088479<ref>PMID:28088479</ref>

-	~~Description: Crystal structure~~ of ~~NtrX from Brucella abortus in complex with ADP processed with~~ the ~~CrystalDirect automated mounting and cryo~~-~~cooling technology~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Carrica, M.C]]	+	<div class="pdbe-citations 5m7p" style="background-color:#fffaf0;"></div>
-	~~[[Category: Fernandez, I]]~~	+	== References ==
-	~~[[Category: Marquez, J.A]]~~	+	<references/>
-	~~[[Category: Goldbaum, F.A~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Carrica, M C]]
	[[Category: Cornaciu, I]]		[[Category: Cornaciu, I]]
		+	[[Category: Fernandez, I]]
		+	[[Category: Goldbaum, F A]]
	[[Category: Hoffmann, G]]		[[Category: Hoffmann, G]]
		+	[[Category: Marquez, J A]]
		+	[[Category: Brucellosis]]
		+	[[Category: Crystaldirect]]
		+	[[Category: Signaling protein]]
		+	[[Category: Two-component system]]

OCA at 13:38, 4 January 2017

OCA — Wed, 04 Jan 2017 13:38:13 GMT

←Older revision		Revision as of 13:38, 4 January 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5m7p is ON HOLD	+	The entry 5m7p is ON HOLD until Paper Publication

	Authors: Cornaciu, I., Fernandez, I., Hoffmann, G., Carrica, M.C., Goldbaum, F.A., Marquez, J.A.		Authors: Cornaciu, I., Fernandez, I., Hoffmann, G., Carrica, M.C., Goldbaum, F.A., Marquez, J.A.

OCA: Protected "5m7p" [edit=sysop:move=sysop]

OCA — Wed, 02 Nov 2016 16:07:35 GMT

Protected "5m7p" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:07, 2 November 2016

OCA: New page: '''Unreleased structure''' The entry 5m7p is ON HOLD Authors: Cornaciu, I., Fernandez, I., Hoffmann, G., Carrica, M.C., Goldbaum, F.A., Marquez, J.A. Description: Crystal structure of ...

OCA — Wed, 02 Nov 2016 16:07:33 GMT

New page: '''Unreleased structure''' The entry 5m7p is ON HOLD Authors: Cornaciu, I., Fernandez, I., Hoffmann, G., Carrica, M.C., Goldbaum, F.A., Marquez, J.A. Description: Crystal structure of ...

New page

'''Unreleased structure'''

The entry 5m7p is ON HOLD

Authors: Cornaciu, I., Fernandez, I., Hoffmann, G., Carrica, M.C., Goldbaum, F.A., Marquez, J.A.

Description: Crystal structure of NtrX from Brucella abortus in complex with ADP processed with the CrystalDirect automated mounting and cryo-cooling technology
[[Category: Unreleased Structures]]
[[Category: Carrica, M.C]]
[[Category: Fernandez, I]]
[[Category: Marquez, J.A]]
[[Category: Goldbaum, F.A]]
[[Category: Cornaciu, I]]
[[Category: Hoffmann, G]]