5jef - Revision history

OCA at 11:00, 6 September 2023

2023-09-06T11:00:57Z

←Older revision		Revision as of 11:00, 6 September 2023
Line 3:		Line 3:
	<StructureSection load='5jef' size='340' side='right'caption='[[5jef]], [[Resolution\|resolution]] 2.42Å' scene=''>		<StructureSection load='5jef' size='340' side='right'caption='[[5jef]], [[Resolution\|resolution]] 2.42Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jef]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JEF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5JEF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jef]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JEF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JEF FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=LFA:EICOSANE'>LFA</scene>~~, ~~<scene name='pdbligand=NO3:NITRATE+ION'>NO3</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]] 2.42Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5iji\|5iji]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LFA:EICOSANE'>LFA</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3]~~ </~~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=5jef FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jef OCA], [https://pdbe.org/5jef PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jef RCSB], [https://www.ebi.ac.uk/pdbsum/5jef PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jef ProSAT]</span></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=5jef FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jef OCA], [~~http~~://pdbe.org/5jef PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jef RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jef PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jef ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/NARQ_ECOLI NARQ_ECOLI]] Acts as a sensor for nitrate/nitrite and transduces signal of nitrate/nitrite availability to the NarL/NarP proteins. NarQ probably activates NarL and NarP by phosphorylation. NarQ probably negatively regulates the NarL protein by dephosphorylation.	+	[https://www.uniprot.org/uniprot/NARQ_ECOLI NARQ_ECOLI] Acts as a sensor for nitrate/nitrite and transduces signal of nitrate/nitrite availability to the NarL/NarP proteins. NarQ probably activates NarL and NarP by phosphorylation. NarQ probably negatively regulates the NarL protein by dephosphorylation.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Histidine kinase~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gordeliy, V]]	+	[[Category: Gordeliy V]]
-	[[Category: Gushchin, I]]	+	[[Category: Gushchin I]]
-	[[Category: Ishchenko, A]]	+	[[Category: Ishchenko A]]
-	[[Category: Melnikov, I]]	+	[[Category: Melnikov I]]
-	[[Category: Polovinkin, V]]	+	[[Category: Polovinkin V]]
-	[[Category: Popov, A]]	+	[[Category: Popov A]]
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Nitrate]]~~	+
-	~~[[Category: Sensor]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:44, 10 June 2020

2020-06-10T07:44:48Z

←Older revision		Revision as of 07:44, 10 June 2020
Line 1:		Line 1:

	==Fragment of nitrate/nitrite sensor histidine kinase NarQ (WT) in asymmetric holo state==		==Fragment of nitrate/nitrite sensor histidine kinase NarQ (WT) in asymmetric holo state==
-	<StructureSection load='5jef' size='340' side='right' caption='[[5jef]], [[Resolution\|resolution]] 2.42Å' scene=''>	+	<StructureSection load='5jef' size='340' side='right'caption='[[5jef]], [[Resolution\|resolution]] 2.42Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jef]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JEF OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JEF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jef]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JEF OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JEF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LFA:EICOSANE'>LFA</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LFA:EICOSANE'>LFA</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5iji\|5iji]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5iji\|5iji]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </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=5jef FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jef OCA], [http://pdbe.org/5jef PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jef RCSB], [http://www.ebi.ac.uk/pdbsum/5jef PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jef ProSAT]</span></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=5jef FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jef OCA], [http://pdbe.org/5jef PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jef RCSB], [http://www.ebi.ac.uk/pdbsum/5jef PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jef ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Histidine kinase]]		[[Category: Histidine kinase]]
		+	[[Category: Large Structures]]
	[[Category: Gordeliy, V]]		[[Category: Gordeliy, V]]
	[[Category: Gushchin, I]]		[[Category: Gushchin, I]]

OCA at 11:03, 3 August 2017

2017-08-03T11:03:47Z

←Older revision		Revision as of 11:03, 3 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5jef is ~~ON HOLD until Paper~~ Publication	+	==Fragment of nitrate/nitrite sensor histidine kinase NarQ (WT) in asymmetric holo state==
		+	<StructureSection load='5jef' size='340' side='right' caption='[[5jef]], [[Resolution\|resolution]] 2.42Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5jef]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JEF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JEF FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LFA:EICOSANE'>LFA</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5iji\|5iji]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </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=5jef FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jef OCA], [http://pdbe.org/5jef PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jef RCSB], [http://www.ebi.ac.uk/pdbsum/5jef PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jef ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NARQ_ECOLI NARQ_ECOLI]] Acts as a sensor for nitrate/nitrite and transduces signal of nitrate/nitrite availability to the NarL/NarP proteins. NarQ probably activates NarL and NarP by phosphorylation. NarQ probably negatively regulates the NarL protein by dephosphorylation.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	One of the major and essential classes of transmembrane (TM) receptors, present in all domains of life, is sensor histidine kinases, parts of two-component signaling systems (TCSs). The structural mechanisms of TM signaling by these sensors are poorly understood. We present crystal structures of the periplasmic sensor domain, the TM domain, and the cytoplasmic HAMP domain of the Escherichia coli nitrate/nitrite sensor histidine kinase NarQ in the ligand-bound and mutated ligand-free states. The structures reveal that the ligand binding induces rearrangements and pistonlike shifts of TM helices. The HAMP domain protomers undergo leverlike motions and convert these pistonlike motions into helical rotations. Our findings provide the structural framework for complete understanding of TM TCS signaling and for development of antimicrobial treatments targeting TCSs.

-	~~Authors~~:	+	Mechanism of transmembrane signaling by sensor histidine kinases.,Gushchin I, Melnikov I, Polovinkin V, Ishchenko A, Yuzhakova A, Buslaev P, Bourenkov G, Grudinin S, Round E, Balandin T, Borshchevskiy V, Willbold D, Leonard G, Buldt G, Popov A, Gordeliy V Science. 2017 Jun 9;356(6342). pii: eaah6345. doi: 10.1126/science.aah6345. Epub , 2017 May 18. PMID:28522691<ref>PMID:28522691</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5jef" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Histidine kinase]]
		+	[[Category: Gordeliy, V]]
		+	[[Category: Gushchin, I]]
		+	[[Category: Ishchenko, A]]
		+	[[Category: Melnikov, I]]
		+	[[Category: Polovinkin, V]]
		+	[[Category: Popov, A]]
		+	[[Category: Membrane protein]]
		+	[[Category: Nitrate]]
		+	[[Category: Sensor]]
		+	[[Category: Transferase]]

OCA at 15:19, 15 May 2016

2016-05-15T15:19:40Z

←Older revision		Revision as of 15:19, 15 May 2016
Line 3:		Line 3:
	The entry 5jef is ON HOLD until Paper Publication		The entry 5jef is ON HOLD until Paper Publication

-	Authors: ~~Gushchin, I., Melnikov, I., Polovinkin, V., Ishchenko, A., Popov, A., Gordeliy, V.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Popov, A]]
-	[[Category: Gordeliy, V]]
-	[[Category: Ishchenko, A]]
-	[[Category: Melnikov, I]]
-	[[Category: Gushchin, I]]
-	[[Category: Polovinkin, V]]

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

2016-05-11T01:55:37Z

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

←Older revision

Revision as of 01:55, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5jef is ON HOLD until Paper Publication Authors: Gushchin, I., Melnikov, I., Polovinkin, V., Ishchenko, A., Popov, A., Gordeliy, V. Description: [...

2016-05-11T01:55:35Z

New page: '''Unreleased structure''' The entry 5jef is ON HOLD until Paper Publication Authors: Gushchin, I., Melnikov, I., Polovinkin, V., Ishchenko, A., Popov, A., Gordeliy, V. Description: [...

New page

'''Unreleased structure'''

The entry 5jef is ON HOLD until Paper Publication

Authors: Gushchin, I., Melnikov, I., Polovinkin, V., Ishchenko, A., Popov, A., Gordeliy, V.

Description:
[[Category: Unreleased Structures]]
[[Category: Popov, A]]
[[Category: Gordeliy, V]]
[[Category: Ishchenko, A]]
[[Category: Melnikov, I]]
[[Category: Gushchin, I]]
[[Category: Polovinkin, V]]