1yax - Revision history

OCA at 08:56, 14 February 2024

OCA — Wed, 14 Feb 2024 08:56:07 GMT

←Older revision		Revision as of 08:56, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1yax' size='340' side='right'caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1yax' size='340' side='right'caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YAX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YAX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.4Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [https://pdbe.org/1yax PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [https://www.ebi.ac.uk/pdbsum/1yax PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yax 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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [https://pdbe.org/1yax PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [https://www.ebi.ac.uk/pdbsum/1yax PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yax ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PHOQ_SALTY PHOQ_SALTY]] Member of the two-component regulatory system PhoP/PhoQ which regulates the expression of genes involved in virulence, adaptation to acidic and low Mg(2+) environments and resistance to host defense antimicrobial peptides. Essential for intramacrophage survival of S.typhimurium. In low periplasmic Mg(2+), PhoQ functions as a membrane-associated protein kinase that undergoes autophosphorylation and subsequently transfers the phosphate to PhoP, resulting in the expression of PhoP-activated genes (PAG) and repression of PhoP-repressed genes (PRG). In high periplasmic Mg(2+), acts as a protein phosphatase that dephosphorylates phospho-PhoP, resulting in the repression of PAG and may lead to expression of some PRG. Essential for transcription of spiC inside macrophages by controlling the expression of the two-component regulatory system SsrB/SpiR (SsrA) and Pir at transcriptional and post-transcriptional levels respectively. Promotes expression of the two-component regulatory system PmrA/PmrB via activation of pmrD gene. Is required to attenuate bacterial growth within fibroblast cells and to enhance bacterial resistance to bile in intestinal cells. Negatively regulates prgH, which is required for invasion of epithelial cells. Involved in acid tolerance.<ref>PMID:2544889</ref> <ref>PMID:9573193</ref> <ref>PMID:15910283</ref>	+	[https://www.uniprot.org/uniprot/PHOQ_SALTY PHOQ_SALTY] Member of the two-component regulatory system PhoP/PhoQ which regulates the expression of genes involved in virulence, adaptation to acidic and low Mg(2+) environments and resistance to host defense antimicrobial peptides. Essential for intramacrophage survival of S.typhimurium. In low periplasmic Mg(2+), PhoQ functions as a membrane-associated protein kinase that undergoes autophosphorylation and subsequently transfers the phosphate to PhoP, resulting in the expression of PhoP-activated genes (PAG) and repression of PhoP-repressed genes (PRG). In high periplasmic Mg(2+), acts as a protein phosphatase that dephosphorylates phospho-PhoP, resulting in the repression of PAG and may lead to expression of some PRG. Essential for transcription of spiC inside macrophages by controlling the expression of the two-component regulatory system SsrB/SpiR (SsrA) and Pir at transcriptional and post-transcriptional levels respectively. Promotes expression of the two-component regulatory system PmrA/PmrB via activation of pmrD gene. Is required to attenuate bacterial growth within fibroblast cells and to enhance bacterial resistance to bile in intestinal cells. Negatively regulates prgH, which is required for invasion of epithelial cells. Involved in acid tolerance.<ref>PMID:2544889</ref> <ref>PMID:9573193</ref> <ref>PMID:15910283</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1yax ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1yax ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Bacterial histidine kinases respond to environmental stimuli by transducing a signal from an extracytosolic sensor domain to a cytosolic catalytic domain. Among them, PhoQ promotes bacterial virulence and is tightly repressed by the divalent cations such as calcium and magnesium. We have determined the crystal structure of the PhoQ sensor domain from Salmonella typhimurium in the Ca2+-bound state, which reveals a highly negatively charged surface that is in close proximity to the inner membrane. This acidic surface binds at least three Ca2+, which mediate the PhoQ-membrane interaction. Mutagenesis analysis indicates that structural integrity at the membrane proximal region of the PhoQ sensor domain promotes metal-mediated repression. We propose that depletion or displacement of divalent cations leads to charge repulsion between PhoQ and the membrane, which initiates transmembrane signaling through a change in orientation between the PhoQ sensor domain and membrane. Therefore, both PhoQ and the membrane are required for extracytosolic sensing and transmembrane signaling.
-
-	Metal bridges between the PhoQ sensor domain and the membrane regulate transmembrane signaling.,Cho US, Bader MW, Amaya MF, Daley ME, Klevit RE, Miller SI, Xu W J Mol Biol. 2006 Mar 10;356(5):1193-206. Epub 2005 Dec 27. PMID:16406409<ref>PMID:16406409</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1yax" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Cho, U S~~]]	+	[[Category: Salmonella enterica subsp. enterica serovar Typhimurium]]
-	[[Category: ~~Xu, W~~]]	+	[[Category: Cho US]]
-	[[Category: ~~Magnesium/calcium bound]]~~	+	[[Category: Xu W]]
-	~~[[Category: Magnesium/calcium sensor]]~~	+
-	~~[[Category: Phoq]]~~	+
-	~~[[Category: Sensor domain]]~~	+
-	~~[[Category: Signaling protein]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 16:25, 3 November 2021

OCA — Wed, 03 Nov 2021 16:25:36 GMT

←Older revision		Revision as of 16:25, 3 November 2021
Line 3:		Line 3:
	<StructureSection load='1yax' size='340' side='right'caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1yax' size='340' side='right'caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1YAX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YAX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [~~http~~://pdbe.org/1yax PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1yax PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1yax 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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [https://pdbe.org/1yax PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [https://www.ebi.ac.uk/pdbsum/1yax PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yax ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PHOQ_SALTY PHOQ_SALTY]] Member of the two-component regulatory system PhoP/PhoQ which regulates the expression of genes involved in virulence, adaptation to acidic and low Mg(2+) environments and resistance to host defense antimicrobial peptides. Essential for intramacrophage survival of S.typhimurium. In low periplasmic Mg(2+), PhoQ functions as a membrane-associated protein kinase that undergoes autophosphorylation and subsequently transfers the phosphate to PhoP, resulting in the expression of PhoP-activated genes (PAG) and repression of PhoP-repressed genes (PRG). In high periplasmic Mg(2+), acts as a protein phosphatase that dephosphorylates phospho-PhoP, resulting in the repression of PAG and may lead to expression of some PRG. Essential for transcription of spiC inside macrophages by controlling the expression of the two-component regulatory system SsrB/SpiR (SsrA) and Pir at transcriptional and post-transcriptional levels respectively. Promotes expression of the two-component regulatory system PmrA/PmrB via activation of pmrD gene. Is required to attenuate bacterial growth within fibroblast cells and to enhance bacterial resistance to bile in intestinal cells. Negatively regulates prgH, which is required for invasion of epithelial cells. Involved in acid tolerance.<ref>PMID:2544889</ref> <ref>PMID:9573193</ref> <ref>PMID:15910283</ref>	+	[[https://www.uniprot.org/uniprot/PHOQ_SALTY PHOQ_SALTY]] Member of the two-component regulatory system PhoP/PhoQ which regulates the expression of genes involved in virulence, adaptation to acidic and low Mg(2+) environments and resistance to host defense antimicrobial peptides. Essential for intramacrophage survival of S.typhimurium. In low periplasmic Mg(2+), PhoQ functions as a membrane-associated protein kinase that undergoes autophosphorylation and subsequently transfers the phosphate to PhoP, resulting in the expression of PhoP-activated genes (PAG) and repression of PhoP-repressed genes (PRG). In high periplasmic Mg(2+), acts as a protein phosphatase that dephosphorylates phospho-PhoP, resulting in the repression of PAG and may lead to expression of some PRG. Essential for transcription of spiC inside macrophages by controlling the expression of the two-component regulatory system SsrB/SpiR (SsrA) and Pir at transcriptional and post-transcriptional levels respectively. Promotes expression of the two-component regulatory system PmrA/PmrB via activation of pmrD gene. Is required to attenuate bacterial growth within fibroblast cells and to enhance bacterial resistance to bile in intestinal cells. Negatively regulates prgH, which is required for invasion of epithelial cells. Involved in acid tolerance.<ref>PMID:2544889</ref> <ref>PMID:9573193</ref> <ref>PMID:15910283</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 17:26, 29 January 2020

OCA — Wed, 29 Jan 2020 17:26:33 GMT

←Older revision		Revision as of 17:26, 29 January 2020
Line 1:		Line 1:

	==Cystal structure Analysis of S.typhimurium PhoQ sensor domain with Calcium==		==Cystal structure Analysis of S.typhimurium PhoQ sensor domain with Calcium==
-	<StructureSection load='1yax' size='340' side='right' caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='1yax' size='340' side='right'caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>		<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>
Line 35:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Cho, U S]]		[[Category: Cho, U S]]
	[[Category: Xu, W]]		[[Category: Xu, W]]

OCA at 07:06, 25 April 2018

OCA — Wed, 25 Apr 2018 07:06:48 GMT

←Older revision		Revision as of 07:06, 25 April 2018
Line 1:		Line 1:
		+
	==Cystal structure Analysis of S.typhimurium PhoQ sensor domain with Calcium==		==Cystal structure Analysis of S.typhimurium PhoQ sensor domain with Calcium==
	<StructureSection load='1yax' size='340' side='right' caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1yax' size='340' side='right' caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>		<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [http://pdbe.org/1yax PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [http://www.ebi.ac.uk/pdbsum/1yax PDBsum]</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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [http://pdbe.org/1yax PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [http://www.ebi.ac.uk/pdbsum/1yax PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1yax ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ya/1yax_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ya/1yax_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1yax ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:41, 11 September 2015

OCA — Fri, 11 Sep 2015 22:41:42 GMT

←Older revision		Revision as of 22:41, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1yax' size='340' side='right' caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1yax' size='340' side='right' caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phoQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [http://pdbe.org/1yax PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [http://www.ebi.ac.uk/pdbsum/1yax PDBsum]</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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [http://www.ebi.ac.uk/pdbsum/1yax PDBsum]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 26:
	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>
	</div>		</div>
		+	<div class="pdbe-citations 1yax" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
	[[Category: Cho, U S]]		[[Category: Cho, U S]]
	[[Category: Xu, W]]		[[Category: Xu, W]]

OCA at 20:24, 25 December 2014

OCA — Thu, 25 Dec 2014 20:24:49 GMT

←Older revision		Revision as of 20:24, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>		<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phoQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phoQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [http://www.ebi.ac.uk/pdbsum/1yax PDBsum]</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=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [http://www.ebi.ac.uk/pdbsum/1yax PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PHOQ_SALTY PHOQ_SALTY]] Member of the two-component regulatory system PhoP/PhoQ which regulates the expression of genes involved in virulence, adaptation to acidic and low Mg(2+) environments and resistance to host defense antimicrobial peptides. Essential for intramacrophage survival of S.typhimurium. In low periplasmic Mg(2+), PhoQ functions as a membrane-associated protein kinase that undergoes autophosphorylation and subsequently transfers the phosphate to PhoP, resulting in the expression of PhoP-activated genes (PAG) and repression of PhoP-repressed genes (PRG). In high periplasmic Mg(2+), acts as a protein phosphatase that dephosphorylates phospho-PhoP, resulting in the repression of PAG and may lead to expression of some PRG. Essential for transcription of spiC inside macrophages by controlling the expression of the two-component regulatory system SsrB/SpiR (SsrA) and Pir at transcriptional and post-transcriptional levels respectively. Promotes expression of the two-component regulatory system PmrA/PmrB via activation of pmrD gene. Is required to attenuate bacterial growth within fibroblast cells and to enhance bacterial resistance to bile in intestinal cells. Negatively regulates prgH, which is required for invasion of epithelial cells. Involved in acid tolerance.<ref>PMID:2544889</ref> <ref>PMID:9573193</ref> <ref>PMID:15910283</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]		[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
-	[[Category: Cho, U S.]]	+	[[Category: Cho, U S]]
-	[[Category: Xu, W.]]	+	[[Category: Xu, W]]
	[[Category: Magnesium/calcium bound]]		[[Category: Magnesium/calcium bound]]
	[[Category: Magnesium/calcium sensor]]		[[Category: Magnesium/calcium sensor]]

OCA at 21:24, 28 September 2014

OCA — Sun, 28 Sep 2014 21:24:43 GMT

←Older revision		Revision as of 21:24, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1yax.~~png~~\|~~left~~\|200px]]	+	==Cystal structure Analysis of S.typhimurium PhoQ sensor domain with Calcium==
		+	<StructureSection load='1yax' size='340' side='right' caption='[[1yax]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1yax]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YAX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phoQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yax OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yax RCSB], [http://www.ebi.ac.uk/pdbsum/1yax PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ya/1yax_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacterial histidine kinases respond to environmental stimuli by transducing a signal from an extracytosolic sensor domain to a cytosolic catalytic domain. Among them, PhoQ promotes bacterial virulence and is tightly repressed by the divalent cations such as calcium and magnesium. We have determined the crystal structure of the PhoQ sensor domain from Salmonella typhimurium in the Ca2+-bound state, which reveals a highly negatively charged surface that is in close proximity to the inner membrane. This acidic surface binds at least three Ca2+, which mediate the PhoQ-membrane interaction. Mutagenesis analysis indicates that structural integrity at the membrane proximal region of the PhoQ sensor domain promotes metal-mediated repression. We propose that depletion or displacement of divalent cations leads to charge repulsion between PhoQ and the membrane, which initiates transmembrane signaling through a change in orientation between the PhoQ sensor domain and membrane. Therefore, both PhoQ and the membrane are required for extracytosolic sensing and transmembrane signaling.

-	~~{{STRUCTURE_1yax\| PDB=1yax \| SCENE= }}~~	+	Metal bridges between the PhoQ sensor domain and the membrane regulate transmembrane signaling.,Cho US, Bader MW, Amaya MF, Daley ME, Klevit RE, Miller SI, Xu W J Mol Biol. 2006 Mar 10;356(5):1193-206. Epub 2005 Dec 27. PMID:16406409<ref>PMID:16406409</ref>

-	~~===Cystal structure Analysis~~ of S.~~typhimurium PhoQ sensor domain with Calcium===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16406409}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1yax]] is a 4 chain structure with sequence from [http:~~//en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA].	+

	==See Also==		==See Also==
	*[[PhoP-PhoQ\|PhoP-PhoQ]]		*[[PhoP-PhoQ\|PhoP-PhoQ]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:016406409<~~/~~ref~~><~~ref group="xtra">PMID:016096064</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]		[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
	[[Category: Cho, U S.]]		[[Category: Cho, U S.]]

OCA at 21:05, 20 October 2012

OCA — Sat, 20 Oct 2012 21:05:06 GMT

←Older revision		Revision as of 21:05, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1yax]] is a 4 chain structure ~~of [[PhoP-PhoQ]]~~ with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA].	+	[[1yax]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA].

	==See Also==		==See Also==

OCA: Protected "1yax" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 12:32:53 GMT

Protected "1yax" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:32, 27 July 2012

OCA at 12:32, 27 July 2012

OCA — Fri, 27 Jul 2012 12:32:51 GMT

←Older revision		Revision as of 12:32, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1yax.png\|left\|200px]]		[[Image:1yax.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1yax", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1yax\| PDB=1yax \| SCENE= }}		{{STRUCTURE_1yax\| PDB=1yax \| SCENE= }}

	===Cystal structure Analysis of S.typhimurium PhoQ sensor domain with Calcium===		===Cystal structure Analysis of S.typhimurium PhoQ sensor domain with Calcium===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16406409}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16406409 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16406409}}		{{ABSTRACT_PUBMED_16406409}}

	==About this Structure==		==About this Structure==
-	~~1YAX~~ is a 4 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/~~Salmonella_typhimurium~~ Salmonella typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA].	+	[[1yax]] is a 4 chain structure of [[PhoP-PhoQ]] with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAX OCA].
		+
		+	==See Also==
		+	*[[PhoP-PhoQ\|PhoP-PhoQ]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16406409~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016406409</ref><ref group="xtra">PMID:016096064</ref><references group="xtra"/>
-	[[Category: Salmonella typhimurium]]	+	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
	[[Category: Cho, U S.]]		[[Category: Cho, U S.]]
	[[Category: Xu, W.]]		[[Category: Xu, W.]]
Line 31:		Line 22:
	[[Category: Phoq]]		[[Category: Phoq]]
	[[Category: Sensor domain]]		[[Category: Sensor domain]]
-		+	[[Category: Signaling protein]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Wed Feb 18 06~~:~~09:24 2009''~~	+	[[Category: Transferase]]