6cju - Revision history

OCA at 14:28, 13 March 2024

OCA — Wed, 13 Mar 2024 14:28:49 GMT

←Older revision		Revision as of 14:28, 13 March 2024
Line 3:		Line 3:
	<SX load='6cju' size='340' side='right' viewer='molstar' caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>		<SX load='6cju' size='340' side='right' viewer='molstar' caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Spitz Spitz~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6CJU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Spirochaeta_thermophila_DSM_6578 Spirochaeta thermophila DSM 6578]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6CJU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=PGW:(1R)-2-{[(S)-{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(HEXADECANOYLOXY)METHYL]ETHYL+(9Z)-OCTADEC-9-ENOATE'>PGW</scene>~~</td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.35Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Spith_0644 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=869211 SPITZ])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=PGW:(1R)-2-{[(S)-{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(HEXADECANOYLOXY)METHYL]ETHYL+(9Z)-OCTADEC-9-ENOATE'>PGW</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=6cju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cju OCA], [~~http~~://pdbe.org/6cju PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6cju RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6cju PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6cju 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=6cju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cju OCA], [https://pdbe.org/6cju PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6cju RCSB], [https://www.ebi.ac.uk/pdbsum/6cju PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6cju ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/G0GA88_SPITZ G0GA88_SPITZ]
-	~~Cyclic nucleotide-modulated channels have important roles in visual signal transduction and pacemaking. Binding of cyclic nucleotides (cAMP~~/~~cGMP) elicits diverse functional responses in different channels within the family despite their high sequence and structure homology~~. The molecular mechanisms responsible for ligand discrimination and gating are unknown due to lack of correspondence between structural information and functional states. Using single particle cryo-electron microscopy and single-channel recording, we assigned functional states to high-resolution structures of SthK, a prokaryotic cyclic nucleotide-gated channel. The structures for apo, cAMP-bound, and cGMP-bound SthK in lipid nanodiscs, correspond to no, moderate, and low single-channel activity, respectively, consistent with the observation that all structures are in resting, closed states. The similarity between apo and ligand-bound structures indicates that ligand-binding domains are strongly coupled to pore and SthK gates in an allosteric, concerted fashion. The different orientations of cAMP and cGMP in the 'resting' and 'activated' structures suggest a mechanism for ligand discrimination.	+

-	Ligand discrimination and gating in cyclic nucleotide-gated ion channels from apo and partial agonist-bound cryo-EM structures.,Rheinberger J, Gao X, Schmidpeter PA, Nimigean CM Elife. 2018 Jul 20;7. pii: 39775. doi: 10.7554/eLife.39775. PMID:30028291<ref>PMID:30028291</ref>	+	==See Also==
-		+	*[[Ion channels 3D structures\|Ion channels 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 6cju" style~~=~~"background-color:#fffaf0;"></div>~~	+
-	~~== References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</SX>		</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Spitz~~]]	+	[[Category: Spirochaeta thermophila DSM 6578]]
-	[[Category: Nimigean~~, C M~~]]	+	[[Category: Nimigean CM]]
-	[[Category: Rheinberger, J]]	+	[[Category: Rheinberger J]]
-	~~[[Category: Camp]]~~	+
-	~~[[Category: Ion channel]]~~	+
-	~~[[Category: Lipid]]~~	+
-	~~[[Category: Tetramer]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 23:42, 10 April 2020

OCA — Fri, 10 Apr 2020 23:42:57 GMT

←Older revision		Revision as of 23:42, 10 April 2020
Line 3:		Line 3:
	<SX load='6cju' size='340' side='right' viewer='molstar' caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>		<SX load='6cju' size='340' side='right' viewer='molstar' caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Spitz Spitz]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6CJU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Spitz Spitz]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6CJU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=PGW:(1R)-2-{[(S)-{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(HEXADECANOYLOXY)METHYL]ETHYL+(9Z)-OCTADEC-9-ENOATE'>PGW</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=PGW:(1R)-2-{[(S)-{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(HEXADECANOYLOXY)METHYL]ETHYL+(9Z)-OCTADEC-9-ENOATE'>PGW</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Spith_0644 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=869211 SPITZ])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Spith_0644 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=869211 SPITZ])</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=6cju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cju OCA], [http://pdbe.org/6cju PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cju RCSB], [http://www.ebi.ac.uk/pdbsum/6cju PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cju 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=6cju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cju OCA], [http://pdbe.org/6cju PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cju RCSB], [http://www.ebi.ac.uk/pdbsum/6cju PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cju ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 20:41, 6 March 2020

OCA — Fri, 06 Mar 2020 20:41:03 GMT

←Older revision		Revision as of 20:41, 6 March 2020
Line 1:		Line 1:

	==Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cAMP==		==Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cAMP==
-	<~~StructureSection~~ load='6cju' size='340' side='right'caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>	+	<SX load='6cju' size='340' side='right' viewer='molstar' caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Spitz Spitz]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CJU FirstGlance]. <br>		<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Spitz Spitz]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CJU FirstGlance]. <br>
Line 20:		Line 20:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Spitz]]		[[Category: Spitz]]

OCA at 09:45, 18 December 2019

OCA — Wed, 18 Dec 2019 09:45:43 GMT

←Older revision		Revision as of 09:45, 18 December 2019
Line 1:		Line 1:

	==Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cAMP==		==Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cAMP==
-	<StructureSection load='6cju' size='340' side='right' caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>	+	<StructureSection load='6cju' size='340' side='right'caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CJU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Spitz Spitz]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CJU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=PGW:(1R)-2-{[(S)-{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(HEXADECANOYLOXY)METHYL]ETHYL+(9Z)-OCTADEC-9-ENOATE'>PGW</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=PGW:(1R)-2-{[(S)-{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(HEXADECANOYLOXY)METHYL]ETHYL+(9Z)-OCTADEC-9-ENOATE'>PGW</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Spith_0644 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=869211 SPITZ])</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=6cju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cju OCA], [http://pdbe.org/6cju PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cju RCSB], [http://www.ebi.ac.uk/pdbsum/6cju PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cju 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=6cju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cju OCA], [http://pdbe.org/6cju PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cju RCSB], [http://www.ebi.ac.uk/pdbsum/6cju PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cju ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Spitz]]
	[[Category: Nimigean, C M]]		[[Category: Nimigean, C M]]
	[[Category: Rheinberger, J]]		[[Category: Rheinberger, J]]

OCA at 18:47, 1 August 2018

OCA — Wed, 01 Aug 2018 18:47:21 GMT

←Older revision		Revision as of 18:47, 1 August 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6cju is ~~ON HOLD until Paper~~ Publication	+	==Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cAMP==
		+	<StructureSection load='6cju' size='340' side='right' caption='[[6cju]], [[Resolution\|resolution]] 3.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6cju]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CJU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CJU FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=PGW:(1R)-2-{[(S)-{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(HEXADECANOYLOXY)METHYL]ETHYL+(9Z)-OCTADEC-9-ENOATE'>PGW</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=6cju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cju OCA], [http://pdbe.org/6cju PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cju RCSB], [http://www.ebi.ac.uk/pdbsum/6cju PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cju ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cyclic nucleotide-modulated channels have important roles in visual signal transduction and pacemaking. Binding of cyclic nucleotides (cAMP/cGMP) elicits diverse functional responses in different channels within the family despite their high sequence and structure homology. The molecular mechanisms responsible for ligand discrimination and gating are unknown due to lack of correspondence between structural information and functional states. Using single particle cryo-electron microscopy and single-channel recording, we assigned functional states to high-resolution structures of SthK, a prokaryotic cyclic nucleotide-gated channel. The structures for apo, cAMP-bound, and cGMP-bound SthK in lipid nanodiscs, correspond to no, moderate, and low single-channel activity, respectively, consistent with the observation that all structures are in resting, closed states. The similarity between apo and ligand-bound structures indicates that ligand-binding domains are strongly coupled to pore and SthK gates in an allosteric, concerted fashion. The different orientations of cAMP and cGMP in the 'resting' and 'activated' structures suggest a mechanism for ligand discrimination.

-	~~Authors~~:	+	Ligand discrimination and gating in cyclic nucleotide-gated ion channels from apo and partial agonist-bound cryo-EM structures.,Rheinberger J, Gao X, Schmidpeter PA, Nimigean CM Elife. 2018 Jul 20;7. pii: 39775. doi: 10.7554/eLife.39775. PMID:30028291<ref>PMID:30028291</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6cju" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Nimigean, C M]]
		+	[[Category: Rheinberger, J]]
		+	[[Category: Camp]]
		+	[[Category: Ion channel]]
		+	[[Category: Lipid]]
		+	[[Category: Tetramer]]
		+	[[Category: Transport protein]]

OCA at 05:46, 25 July 2018

OCA — Wed, 25 Jul 2018 05:46:31 GMT

←Older revision		Revision as of 05:46, 25 July 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6cju is ON HOLD	+	The entry 6cju is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 05:19, 18 July 2018

OCA — Wed, 18 Jul 2018 05:19:11 GMT

←Older revision		Revision as of 05:19, 18 July 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6cju is ON HOLD ~~until Paper Publication~~	+	The entry 6cju is ON HOLD

	Authors:		Authors:

OCA at 03:59, 25 April 2018

OCA — Wed, 25 Apr 2018 03:59:19 GMT

←Older revision		Revision as of 03:59, 25 April 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6cju is ON HOLD	+	The entry 6cju is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 05:15, 28 March 2018

OCA — Wed, 28 Mar 2018 05:15:40 GMT

←Older revision		Revision as of 05:15, 28 March 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6cju is ON HOLD ~~until Paper Publication~~	+	The entry 6cju is ON HOLD

	Authors:		Authors:

OCA at 06:07, 21 March 2018

OCA — Wed, 21 Mar 2018 06:07:42 GMT

←Older revision		Revision as of 06:07, 21 March 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6cju is ON HOLD	+	The entry 6cju is ON HOLD until Paper Publication

	Authors:		Authors: