4lml - Revision history

OCA at 16:21, 20 September 2023

OCA — Wed, 20 Sep 2023 16:21:33 GMT

←Older revision		Revision as of 16:21, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4lml]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Gloeobacter_violaceus Gloeobacter violaceus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4LML FirstGlance]. <br>		<table><tr><td colspan='2'>[[4lml]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Gloeobacter_violaceus Gloeobacter violaceus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4LML FirstGlance]. <br>
-	</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=4lml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lml OCA], [https://pdbe.org/4lml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4lml RCSB], [https://www.ebi.ac.uk/pdbsum/4lml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4lml ProSAT]</span></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]] 3.8Å</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=4lml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lml OCA], [https://pdbe.org/4lml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4lml RCSB], [https://www.ebi.ac.uk/pdbsum/4lml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4lml ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 11:11, 14 December 2022

OCA — Wed, 14 Dec 2022 11:11:26 GMT

←Older revision		Revision as of 11:11, 14 December 2022
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	==GLIC double mutant I9'A T25'A==		==GLIC double mutant I9'A T25'A==
-	<StructureSection load='4lml' size='340' side='right' caption='[[4lml]], [[Resolution\|resolution]] 3.80Å' scene=''>	+	<StructureSection load='4lml' size='340' side='right'caption='[[4lml]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4lml]] is a 5 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Glovo Glovo~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4LML FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4lml]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Gloeobacter_violaceus Gloeobacter violaceus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4LML FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lmj\|4lmj]], [[4lmk\|4lmk]]</td></tr>~~	+	</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=4lml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lml OCA], [https://pdbe.org/4lml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4lml RCSB], [https://www.ebi.ac.uk/pdbsum/4lml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4lml ProSAT]</span></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=33072 GLOVO])</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=4lml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lml OCA], [~~http~~://pdbe.org/4lml PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4lml RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4lml PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4lml 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>	+	[https://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;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
-	*[[Ion channels\|Ion channels]]	+	*[[Ion channels 3D structures\|Ion channels 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Glovo~~]]	+	[[Category: Gloeobacter violaceus]]
-	[[Category: ~~Gonzalez-Gutierrez, G~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Grosman, C]]~~	+	[[Category: Gonzalez-Gutierrez G]]
-	~~[[Category: Membrane protein]]~~	+	[[Category: Grosman C]]
-	~~[[Category: Pentameric ligand~~-~~gated ion channel~~]]	+
-	[[Category: ~~Prokaryotic cys-loop receptor]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 17:44, 4 August 2016

OCA — Thu, 04 Aug 2016 17:44:14 GMT

←Older revision		Revision as of 17:44, 4 August 2016
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		+
	==GLIC double mutant I9'A T25'A==		==GLIC double mutant I9'A T25'A==
	<StructureSection load='4lml' size='340' side='right' caption='[[4lml]], [[Resolution\|resolution]] 3.80Å' scene=''>		<StructureSection load='4lml' size='340' side='right' caption='[[4lml]], [[Resolution\|resolution]] 3.80Å' scene=''>
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	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lmj\|4lmj]], [[4lmk\|4lmk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lmj\|4lmj]], [[4lmk\|4lmk]]</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=33072 GLOVO])</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=33072 GLOVO])</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=4lml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4lml RCSB], [http://www.ebi.ac.uk/pdbsum/4lml 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=4lml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lml OCA], [http://pdbe.org/4lml PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4lml RCSB], [http://www.ebi.ac.uk/pdbsum/4lml PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4lml ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	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 4lml" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ion channels\|Ion channels]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:32, 25 December 2014

OCA — Thu, 25 Dec 2014 11:32:06 GMT

←Older revision		Revision as of 11:32, 25 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4lml\| PDB=4lml \| SCENE= }}~~	+	==GLIC double mutant I9'A T25'A==
-	===GLIC double mutant I9'A T25'A===	+	<StructureSection load='4lml' size='340' side='right' caption='[[4lml]], [[Resolution\|resolution]] 3.80Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24167270}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4lml]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Glovo Glovo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4LML FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lmj\|4lmj]], [[4lmk\|4lmk]]</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=33072 GLOVO])</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=4lml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4lml RCSB], [http://www.ebi.ac.uk/pdbsum/4lml PDBsum]</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>		[[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 ==
		+	Cryoelectron microscopy and X-ray crystallography have recently been used to generate structural models that likely represent the unliganded closed-channel conformation and the fully liganded open-channel conformation of different members of the nicotinic-receptor superfamily. To characterize the structure of the closed-channel conformation in its liganded state, we identified a number of positions in the loop between transmembrane segments 2 (M2) and 3 (M3) of a proton-gated ortholog from the bacterium Gloeobacter violaceus (GLIC) where mutations to alanine reduce the liganded-gating equilibrium constant, and solved the crystal structures of two such mutants (T25'A and Y27'A) at pH approximately 4.0. At the level of backbone atoms, the liganded closed-channel model presented here differs from the liganded open-channel structure of GLIC in the pre-M1 linker, the M3-M4 loop, and much more prominently, in the extracellular half of the pore lining, where the more pronounced tilt of the closed-channel M2 alpha-helices toward the pore's long axis narrows the permeation pathway. On the other hand, no differences between the liganded closed-channel and open-channel models could be detected at the level of the extracellular domain, where conformational changes are expected to underlie the low-to-high proton-affinity switch that drives gating of proton-bound channels. Thus, the liganded closed-channel model is nearly indistinguishable from the recently described "locally closed" structure. However, because cross-linking strategies (which could have stabilized unstable conformations) and mutations involving ionizable side chains (which could have affected proton-gated channel activation) were purposely avoided, we favor the notion that this structure represents one of the end states of liganded gating rather than an unstable intermediate.

-	~~==About this Structure==~~	+	Gating of the proton-gated ion channel from Gloeobacter violaceus at pH 4 as revealed by X-ray crystallography.,Gonzalez-Gutierrez G, Cuello LG, Nair SK, Grosman C Proc Natl Acad Sci U S A. 2013 Oct 28. PMID:24167270<ref>PMID:24167270</ref>
-	~~[[4lml]] is a 5 chain structure with sequence~~ from ~~[http://en~~.~~wikipedia~~.~~org/wiki/Glovo Glovo]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:024167270</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Glovo]]		[[Category: Glovo]]
-	[[Category: Gonzalez-Gutierrez, G.]]	+	[[Category: Gonzalez-Gutierrez, G]]
-	[[Category: Grosman, C.]]	+	[[Category: Grosman, C]]
	[[Category: Membrane protein]]		[[Category: Membrane protein]]
	[[Category: Pentameric ligand-gated ion channel]]		[[Category: Pentameric ligand-gated ion channel]]
	[[Category: Prokaryotic cys-loop receptor]]		[[Category: Prokaryotic cys-loop receptor]]
	[[Category: Transport protein]]		[[Category: Transport protein]]

OCA at 06:21, 13 November 2013

OCA — Wed, 13 Nov 2013 06:21:55 GMT

←Older revision		Revision as of 06:21, 13 November 2013
Line 1:		Line 1:
	{{STRUCTURE_4lml\| PDB=4lml \| SCENE= }}		{{STRUCTURE_4lml\| PDB=4lml \| SCENE= }}
	===GLIC double mutant I9'A T25'A===		===GLIC double mutant I9'A T25'A===
		+	{{ABSTRACT_PUBMED_24167270}}

	==Function==		==Function==
Line 6:		Line 7:

	==About this Structure==		==About this Structure==
-	[[4lml]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Gloeobacter_violaceus Gloeobacter violaceus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA].	+	[[4lml]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Glovo Glovo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA].

	==Reference==		==Reference==
-	<references group="xtra"/><references/>	+	<ref group="xtra">PMID:024167270</ref><references group="xtra"/><references/>
-	[[Category: ~~Gloeobacter violaceus~~]]	+	[[Category: Glovo]]
	[[Category: Gonzalez-Gutierrez, G.]]		[[Category: Gonzalez-Gutierrez, G.]]
	[[Category: Grosman, C.]]		[[Category: Grosman, C.]]

OCA at 09:53, 30 October 2013

OCA — Wed, 30 Oct 2013 09:53:22 GMT

←Older revision		Revision as of 09:53, 30 October 2013
Line 1:		Line 1:
-	''~~'Unreleased structure'''~~	+	{{STRUCTURE_4lml\| PDB=4lml \| SCENE= }}
		+	===GLIC double mutant I9'A T25'A===

-	~~The entry 4lml~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	==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>

-	~~Authors~~: ~~Grosman, C~~.~~, Gonzalez~~-~~Gutierrez, G~~.	+	==About this Structure==
		+	[[4lml]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Gloeobacter_violaceus Gloeobacter violaceus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LML OCA].

-	~~Description~~: ~~GLIC double mutant I9'A T25'A~~	+	==Reference==
		+	<references group="xtra"/><references/>
		+	[[Category: Gloeobacter violaceus]]
		+	[[Category: Gonzalez-Gutierrez, G.]]
		+	[[Category: Grosman, C.]]
		+	[[Category: Membrane protein]]
		+	[[Category: Pentameric ligand-gated ion channel]]
		+	[[Category: Prokaryotic cys-loop receptor]]
		+	[[Category: Transport protein]]

OCA at 04:18, 1 August 2013

OCA — Thu, 01 Aug 2013 04:18:50 GMT

←Older revision		Revision as of 04:18, 1 August 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4lml is ON HOLD	+	The entry 4lml is ON HOLD until Paper Publication

-	Authors: Grosman, C., Gonzalez-Gutierrez, G.~~, Advanced Photon Source. Argonne National Laboratory~~	+	Authors: Grosman, C., Gonzalez-Gutierrez, G.

-	Description: ~~Glic doble~~ mutant I9'A T25'A	+	Description: GLIC double mutant I9'A T25'A

OCA: Protected "4lml" [edit=sysop:move=sysop]

OCA — Thu, 18 Jul 2013 04:48:25 GMT

Protected "4lml" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:48, 18 July 2013

OCA: New page: '''Unreleased structure''' The entry 4lml is ON HOLD Authors: Grosman, C., Gonzalez-Gutierrez, G., Advanced Photon Source. Argonne National Laboratory Description: Glic doble mutant I9...

OCA — Thu, 18 Jul 2013 04:48:25 GMT

New page: '''Unreleased structure''' The entry 4lml is ON HOLD Authors: Grosman, C., Gonzalez-Gutierrez, G., Advanced Photon Source. Argonne National Laboratory Description: Glic doble mutant I9...

New page

'''Unreleased structure'''

The entry 4lml is ON HOLD

Authors: Grosman, C., Gonzalez-Gutierrez, G., Advanced Photon Source. Argonne National Laboratory

Description: Glic doble mutant I9'A T25'A