5vke - Revision history

OCA at 07:03, 3 April 2024

OCA — Wed, 03 Apr 2024 07:03:38 GMT

←Older revision		Revision as of 07:03, 3 April 2024
Line 3:		Line 3:
	<StructureSection load='5vke' size='340' side='right'caption='[[5vke]], [[Resolution\|resolution]] 2.37Å' scene=''>		<StructureSection load='5vke' size='340' side='right'caption='[[5vke]], [[Resolution\|resolution]] 2.37Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vke]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"actinomyces_lividans"_krasil'nikov_et_al._1965 "actinomyces lividans" krasil'nikov et al. 1965~~] and [~~http~~://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VKE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5VKE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vke]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [https://en.wikipedia.org/wiki/Streptomyces_lividans Streptomyces lividans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VKE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VKE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1EM:(1S)-2-HYDROXY-1-[(NONANOYLOXY)METHYL]ETHYL+MYRISTATE'>1EM</scene>, <scene name='pdbligand=F09:NONAN-1-OL'>F09</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</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]] 2.37Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vk6\|5vk6]], [[5vkh\|5vkh]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1EM:(1S)-2-HYDROXY-1-[(NONANOYLOXY)METHYL]ETHYL+MYRISTATE'>1EM</scene>, <scene name='pdbligand=F09:NONAN-1-OL'>F09</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kcsA, skc1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1916 "Actinomyces lividans" Krasil'nikov et al. 1965])</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=5vke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vke OCA], [https://pdbe.org/5vke PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vke RCSB], [https://www.ebi.ac.uk/pdbsum/5vke PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vke 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=5vke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vke OCA], [~~http~~://pdbe.org/5vke PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5vke RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5vke PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5vke ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/KCSA_STRLI KCSA_STRLI]] Acts as a pH-gated potassium ion channel; changing the cytosolic pH from 7 to 4 opens the channel, although it is not clear if this is the physiological stimulus for channel opening. Monovalent cation preference is K(+) > Rb(+) > NH4(+) >> Na(+) > Li(+).<ref>PMID:7489706</ref>	+	[https://www.uniprot.org/uniprot/KCSA_STRLI KCSA_STRLI] Acts as a pH-gated potassium ion channel; changing the cytosolic pH from 7 to 4 opens the channel, although it is not clear if this is the physiological stimulus for channel opening. Monovalent cation preference is K(+) > Rb(+) > NH4(+) >> Na(+) > Li(+).<ref>PMID:7489706</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	C-type inactivation in potassium channels helps fine-tune long-term channel activity through conformational changes at the selectivity filter. Here, through the use of cross-linked constitutively open constructs, we determined the structures of KcsA's mutants that stabilize the selectivity filter in its conductive (E71A, at 2.25 A) and deep C-type inactivated (Y82A at 2.4 A) conformations. These structural snapshots represent KcsA's transient open-conductive (O/O) and the stable open deep C-type inactivated states (O/I), respectively. The present structures provide an unprecedented view of the selectivity filter backbone in its collapsed deep C-type inactivated conformation, highlighting the close interactions with structural waters and the local allosteric interactions that couple activation and inactivation gating. Together with the structures associated with the closed-inactivated state (C/I) and in the well-known closed conductive state (C/O), this work recapitulates, at atomic resolution, the key conformational changes of a potassium channel pore domain as it progresses along its gating cycle.	+
-		+
-	~~The gating cycle of a K(+) channel at atomic resolution.,Cuello LG, Cortes DM, Perozo E Elife. 2017 Nov 22;6. doi: 10.7554/eLife.28032. PMID:29165243<ref>PMID:29165243</ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5vke" style="background-color:#fffaf0;"></div~~>	+

	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
	*[[Potassium channel 3D structures\|Potassium channel 3D structures]]		*[[Potassium channel 3D structures\|Potassium channel 3D structures]]
		+	*[[3D structures of non-human antibody\|3D structures of non-human antibody]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Actinomyces lividans krasil'nikov et al. 1965]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: ~~Cortes, D M~~]]	+	[[Category: Streptomyces lividans]]
-	[[Category: ~~Cuello, L G~~]]	+	[[Category: Cortes DM]]
-	[[Category: ~~Perozo, E~~]]	+	[[Category: Cuello LG]]
-	[[Category: ~~Deep-inactivated]]~~	+	[[Category: Perozo E]]
-	~~[[Category: Immune system-transport protein complex]]~~	+
-	~~[[Category: Kcsa]]~~	+
-	~~[[Category: Open]]~~	+
-	~~[[Category: Potassium channel~~]]	+

OCA at 09:36, 1 January 2020

OCA — Wed, 01 Jan 2020 09:36:24 GMT

←Older revision		Revision as of 09:36, 1 January 2020
Line 1:		Line 1:

	==Open conformation of KcsA deep-inactivated==		==Open conformation of KcsA deep-inactivated==
-	<StructureSection load='5vke' size='340' side='right' caption='[[5vke]], [[Resolution\|resolution]] 2.37Å' scene=''>	+	<StructureSection load='5vke' size='340' side='right'caption='[[5vke]], [[Resolution\|resolution]] 2.37Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5vke]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_lividans"_krasil'nikov_et_al._1965 "actinomyces lividans" krasil'nikov et al. 1965] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VKE FirstGlance]. <br>		<table><tr><td colspan='2'>[[5vke]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_lividans"_krasil'nikov_et_al._1965 "actinomyces lividans" krasil'nikov et al. 1965] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VKE FirstGlance]. <br>
Line 23:		Line 23:
	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Potassium channel 3D structures\|Potassium channel 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 28:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Actinomyces lividans krasil'nikov et al. 1965]]		[[Category: Actinomyces lividans krasil'nikov et al. 1965]]
		+	[[Category: Large Structures]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Cortes, D M]]		[[Category: Cortes, D M]]

OCA at 06:37, 18 April 2018

OCA — Wed, 18 Apr 2018 06:37:57 GMT

←Older revision		Revision as of 06:37, 18 April 2018
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 5vke" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5vke" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:32, 13 December 2017

OCA — Wed, 13 Dec 2017 07:32:36 GMT

←Older revision		Revision as of 07:32, 13 December 2017
Line 3:		Line 3:
	<StructureSection load='5vke' size='340' side='right' caption='[[5vke]], [[Resolution\|resolution]] 2.37Å' scene=''>		<StructureSection load='5vke' size='340' side='right' caption='[[5vke]], [[Resolution\|resolution]] 2.37Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vke]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VKE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vke]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_lividans"_krasil'nikov_et_al._1965 "actinomyces lividans" krasil'nikov et al. 1965] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VKE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1EM:(1S)-2-HYDROXY-1-[(NONANOYLOXY)METHYL]ETHYL+MYRISTATE'>1EM</scene>, <scene name='pdbligand=F09:NONAN-1-OL'>F09</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1EM:(1S)-2-HYDROXY-1-[(NONANOYLOXY)METHYL]ETHYL+MYRISTATE'>1EM</scene>, <scene name='pdbligand=F09:NONAN-1-OL'>F09</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vk6\|5vk6]], [[5vkh\|5vkh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vk6\|5vk6]], [[5vkh\|5vkh]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">kcsA, skc1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1916 "Actinomyces lividans" Krasil'nikov et al. 1965])</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=5vke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vke OCA], [http://pdbe.org/5vke PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vke RCSB], [http://www.ebi.ac.uk/pdbsum/5vke PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vke 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=5vke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vke OCA], [http://pdbe.org/5vke PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vke RCSB], [http://www.ebi.ac.uk/pdbsum/5vke PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vke ProSAT]</span></td></tr>
	</table>		</table>
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Actinomyces lividans krasil'nikov et al. 1965]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Cortes, D M]]		[[Category: Cortes, D M]]

OCA at 07:15, 6 December 2017

OCA — Wed, 06 Dec 2017 07:15:25 GMT

←Older revision		Revision as of 07:15, 6 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5vke is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Open conformation of KcsA deep-inactivated==
		+	<StructureSection load='5vke' size='340' side='right' caption='[[5vke]], [[Resolution\|resolution]] 2.37Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5vke]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VKE FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1EM:(1S)-2-HYDROXY-1-[(NONANOYLOXY)METHYL]ETHYL+MYRISTATE'>1EM</scene>, <scene name='pdbligand=F09:NONAN-1-OL'>F09</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vk6\|5vk6]], [[5vkh\|5vkh]]</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=5vke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vke OCA], [http://pdbe.org/5vke PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vke RCSB], [http://www.ebi.ac.uk/pdbsum/5vke PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vke ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/KCSA_STRLI KCSA_STRLI]] Acts as a pH-gated potassium ion channel; changing the cytosolic pH from 7 to 4 opens the channel, although it is not clear if this is the physiological stimulus for channel opening. Monovalent cation preference is K(+) > Rb(+) > NH4(+) >> Na(+) > Li(+).<ref>PMID:7489706</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	C-type inactivation in potassium channels helps fine-tune long-term channel activity through conformational changes at the selectivity filter. Here, through the use of cross-linked constitutively open constructs, we determined the structures of KcsA's mutants that stabilize the selectivity filter in its conductive (E71A, at 2.25 A) and deep C-type inactivated (Y82A at 2.4 A) conformations. These structural snapshots represent KcsA's transient open-conductive (O/O) and the stable open deep C-type inactivated states (O/I), respectively. The present structures provide an unprecedented view of the selectivity filter backbone in its collapsed deep C-type inactivated conformation, highlighting the close interactions with structural waters and the local allosteric interactions that couple activation and inactivation gating. Together with the structures associated with the closed-inactivated state (C/I) and in the well-known closed conductive state (C/O), this work recapitulates, at atomic resolution, the key conformational changes of a potassium channel pore domain as it progresses along its gating cycle.

-	~~Authors:~~ Cuello, ~~L.G.~~, Perozo, E.~~, Cortes, D~~.M.	+	The gating cycle of a K(+) channel at atomic resolution.,Cuello LG, Cortes DM, Perozo E Elife. 2017 Nov 22;6. doi: 10.7554/eLife.28032. PMID:29165243<ref>PMID:29165243</ref>

-	~~Description: Open conformation~~ of ~~KcsA deep~~-~~inactivated~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Cuello, L.G]]	+	<div class="pdbe-citations 5vke" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Mus musculus]]
		+	[[Category: Cortes, D M]]
		+	[[Category: Cuello, L G]]
	[[Category: Perozo, E]]		[[Category: Perozo, E]]
-	[[Category: ~~Cortes, D.M~~]]	+	[[Category: Deep-inactivated]]
		+	[[Category: Immune system-transport protein complex]]
		+	[[Category: Kcsa]]
		+	[[Category: Open]]
		+	[[Category: Potassium channel]]

OCA at 13:56, 17 May 2017

OCA — Wed, 17 May 2017 13:56:13 GMT

←Older revision		Revision as of 13:56, 17 May 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5vke is ON HOLD	+	The entry 5vke is ON HOLD until Paper Publication

	Authors: Cuello, L.G., Perozo, E., Cortes, D.M.		Authors: Cuello, L.G., Perozo, E., Cortes, D.M.

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

OCA — Thu, 04 May 2017 11:24:14 GMT

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

←Older revision

Revision as of 11:24, 4 May 2017

OCA: New page: '''Unreleased structure''' The entry 5vke is ON HOLD Authors: Cuello, L.G., Perozo, E., Cortes, D.M. Description: Open conformation of KcsA deep-inactivated [[Category: Unreleased Stru...

OCA — Thu, 04 May 2017 11:24:13 GMT

New page: '''Unreleased structure''' The entry 5vke is ON HOLD Authors: Cuello, L.G., Perozo, E., Cortes, D.M. Description: Open conformation of KcsA deep-inactivated [[Category: Unreleased Stru...

New page

'''Unreleased structure'''

The entry 5vke is ON HOLD

Authors: Cuello, L.G., Perozo, E., Cortes, D.M.

Description: Open conformation of KcsA deep-inactivated
[[Category: Unreleased Structures]]
[[Category: Cuello, L.G]]
[[Category: Perozo, E]]
[[Category: Cortes, D.M]]