6hyv - Revision history

OCA at 08:45, 26 December 2018

OCA — Wed, 26 Dec 2018 08:45:03 GMT

←Older revision		Revision as of 08:45, 26 December 2018
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	<StructureSection load='6hyv' size='340' side='right' caption='[[6hyv]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='6hyv' size='340' side='right' caption='[[6hyv]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hyv]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HYV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HYV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hyv]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Glovi Glovi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HYV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HYV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PLC:DIUNDECYL+PHOSPHATIDYL+CHOLINE'>PLC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PLC:DIUNDECYL+PHOSPHATIDYL+CHOLINE'>PLC</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glvI, glr4197 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=251221 GLOVI])</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=6hyv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hyv OCA], [http://pdbe.org/6hyv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hyv RCSB], [http://www.ebi.ac.uk/pdbsum/6hyv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hyv 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=6hyv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hyv OCA], [http://pdbe.org/6hyv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hyv RCSB], [http://www.ebi.ac.uk/pdbsum/6hyv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hyv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/GLIC_GLOVI GLIC_GLOVI]] Cationic channel with similar permeabilities for Na(+) and K(+), that is activated by an increase of the proton concentration on the extracellular side. Displays no permeability for chloride ions. Shows slow kinetics of activation, no desensitization and a single channel conductance of 8 pS. Might contribute to adaptation to external pH change.<ref>PMID:17167423</ref>		[[http://www.uniprot.org/uniprot/GLIC_GLOVI GLIC_GLOVI]] Cationic channel with similar permeabilities for Na(+) and K(+), that is activated by an increase of the proton concentration on the extracellular side. Displays no permeability for chloride ions. Shows slow kinetics of activation, no desensitization and a single channel conductance of 8 pS. Might contribute to adaptation to external pH change.<ref>PMID:17167423</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The pentameric ligand-gated ion channel (pLGIC) from Gloeobacter violaceus (GLIC) has provided insightful structure-function views on the permeation process and the allosteric regulation of the pLGICs family. However, GLIC is activated by pH instead of a neurotransmitter and a clear picture for the gating transition driven by protons is still lacking. We used an electrostatics-based (finite difference Poisson-Boltzmann/Debye-Huckel) method to predict the acidities of all aspartic and glutamic residues in GLIC, both in its active and closed-channel states. Those residues with a predicted pKa close to the experimental pH50 were individually replaced by alanine and the resulting variant receptors were titrated by ATR/FTIR spectroscopy. E35, located in front of loop F far away from the orthosteric site, appears as the key proton sensor with a measured individual pKa at 5.8. In the GLIC open conformation, E35 is connected through a water-mediated hydrogen-bond network first to the highly conserved electrostatic triad R192-D122-D32 and then to Y197-Y119-K248, both located at the extracellular domain-transmembrane domain interface. The second triad controls a cluster of hydrophobic side chains from the M2-M3 loop that is remodeled during the gating transition. We solved 12 crystal structures of GLIC mutants, 6 of them being trapped in an agonist-bound but nonconductive conformation. Combined with previous data, this reveals two branches of a continuous network originating from E35 that reach, independently, the middle transmembrane region of two adjacent subunits. We conclude that GLIC's gating proceeds by making use of loop F, already known as an allosteric site in other pLGICs, instead of the classic orthosteric site.
		+
		+	Electrostatics, proton sensor, and networks governing the gating transition in GLIC, a proton-gated pentameric ion channel.,Hu H, Ataka K, Menny A, Fourati Z, Sauguet L, Corringer PJ, Koehl P, Heberle J, Delarue M Proc Natl Acad Sci U S A. 2018 Dec 12. pii: 1813378116. doi:, 10.1073/pnas.1813378116. PMID:30541892<ref>PMID:30541892</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6hyv" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Glovi]]
	[[Category: Delarue, M]]		[[Category: Delarue, M]]
	[[Category: Hu, H D]]		[[Category: Hu, H D]]

OCA at 08:30, 19 December 2018

OCA — Wed, 19 Dec 2018 08:30:44 GMT

←Older revision		Revision as of 08:30, 19 December 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6hyv is ~~ON HOLD~~	+	==THE GLIC PENTAMERIC LIGAND-GATED ION CHANNEL MUTANT Y119A==
-		+	<StructureSection load='6hyv' size='340' side='right' caption='[[6hyv]], [[Resolution\|resolution]] 2.80Å' scene=''>
-	~~Authors~~: Hu, H.D., ~~Delarue~~, M.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6hyv]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HYV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HYV FirstGlance]. <br>
-	~~Description~~: ~~THE GLIC PENTAMERIC LIGAND~~-~~GATED ION CHANNEL MUTANT Y119A~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PLC:DIUNDECYL+PHOSPHATIDYL+CHOLINE'>PLC</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<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=6hyv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hyv OCA], [http://pdbe.org/6hyv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hyv RCSB], [http://www.ebi.ac.uk/pdbsum/6hyv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hyv ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GLIC_GLOVI GLIC_GLOVI]] Cationic channel with similar permeabilities for Na(+) and K(+), that is activated by an increase of the proton concentration on the extracellular side. Displays no permeability for chloride ions. Shows slow kinetics of activation, no desensitization and a single channel conductance of 8 pS. Might contribute to adaptation to external pH change.<ref>PMID:17167423</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Delarue, M]]		[[Category: Delarue, M]]
-	[[Category: Hu, H.D]]	+	[[Category: Hu, H D]]
		+	[[Category: Ion channel]]
		+	[[Category: Membrane protein]]
		+	[[Category: Pentameric transmembrane channel]]

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

OCA — Wed, 31 Oct 2018 05:12:07 GMT

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

←Older revision

Revision as of 05:12, 31 October 2018

OCA: New page: '''Unreleased structure''' The entry 6hyv is ON HOLD Authors: Hu, H.D., Delarue, M. Description: THE GLIC PENTAMERIC LIGAND-GATED ION CHANNEL MUTANT Y119A [[Category: Unreleased Struct...

OCA — Wed, 31 Oct 2018 05:12:06 GMT

New page: '''Unreleased structure''' The entry 6hyv is ON HOLD Authors: Hu, H.D., Delarue, M. Description: THE GLIC PENTAMERIC LIGAND-GATED ION CHANNEL MUTANT Y119A [[Category: Unreleased Struct...

New page

'''Unreleased structure'''

The entry 6hyv is ON HOLD

Authors: Hu, H.D., Delarue, M.

Description: THE GLIC PENTAMERIC LIGAND-GATED ION CHANNEL MUTANT Y119A
[[Category: Unreleased Structures]]
[[Category: Delarue, M]]
[[Category: Hu, H.D]]