6bv7 - Revision history

OCA at 07:30, 1 May 2024

OCA — Wed, 01 May 2024 07:30:10 GMT

←Older revision		Revision as of 07:30, 1 May 2024
Line 1:		Line 1:

	==NMR structure of Sodium/Calcium Exchanger 1 (NCX1) Two-helix Bundle (THB) domain==		==NMR structure of Sodium/Calcium Exchanger 1 (NCX1) Two-helix Bundle (THB) domain==
-	<StructureSection load='6bv7' size='340' side='right'caption='[[6bv7~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='6bv7' size='340' side='right'caption='[[6bv7]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6bv7]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Canlf Canlf~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BV7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6BV7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6bv7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BV7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6BV7 FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>SLC8A1, NCX1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~9615 CANLF])~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=6bv7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bv7 OCA], [~~http~~://pdbe.org/6bv7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6bv7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6bv7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6bv7 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=6bv7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bv7 OCA], [https://pdbe.org/6bv7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6bv7 RCSB], [https://www.ebi.ac.uk/pdbsum/6bv7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6bv7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/NAC1_CANLF NAC1_CANLF]] Mediates the exchange of one Ca(2+) ion against three to four Na(+) ions across the cell membrane, and thereby contributes to the regulation of cytoplasmic Ca(2+) levels and Ca(2+)-dependent cellular processes (PubMed:1700476, PubMed:1785844, PubMed:9486131, PubMed:17962412). Contributes to Ca(2+) transport during excitation-contraction coupling in muscle. In a first phase, voltage-gated channels mediate the rapid increase of cytoplasmic Ca(2+) levels due to release of Ca(2+) stores from the endoplasmic reticulum. SLC8A1 mediates the export of Ca(2+) from the cell during the next phase, so that cytoplasmic Ca(2+) levels rapidly return to baseline. Required for normal embryonic heart development and the onset of heart contractions (By similarity).[UniProtKB:P70414]<ref>PMID:1700476</ref> <ref>PMID:1785844</ref> <ref>PMID:17962412</ref> <ref>PMID:19332552</ref> <ref>PMID:9486131</ref>	+	[https://www.uniprot.org/uniprot/NAC1_CANLF NAC1_CANLF] Mediates the exchange of one Ca(2+) ion against three to four Na(+) ions across the cell membrane, and thereby contributes to the regulation of cytoplasmic Ca(2+) levels and Ca(2+)-dependent cellular processes (PubMed:1700476, PubMed:1785844, PubMed:9486131, PubMed:17962412). Contributes to Ca(2+) transport during excitation-contraction coupling in muscle. In a first phase, voltage-gated channels mediate the rapid increase of cytoplasmic Ca(2+) levels due to release of Ca(2+) stores from the endoplasmic reticulum. SLC8A1 mediates the export of Ca(2+) from the cell during the next phase, so that cytoplasmic Ca(2+) levels rapidly return to baseline. Required for normal embryonic heart development and the onset of heart contractions (By similarity).[UniProtKB:P70414]<ref>PMID:1700476</ref> <ref>PMID:1785844</ref> <ref>PMID:17962412</ref> <ref>PMID:19332552</ref> <ref>PMID:9486131</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The Na+/Ca2+ exchanger (NCX) is a ubiquitous single-chain membrane protein that plays a major role in regulating the intracellular Ca2+ homeostasis by the counter transport of Na+ and Ca2+ across the cell membrane. Other than its prokaryotic counterpart, which contains only the transmembrane domain and is self-sufficient as an active ion transporter, the eukaryotic NCX protein possesses in addition a large intracellular loop that senses intracellular calcium signals and controls the activation of ion transport across the membrane. This provides a necessary layer of regulation for the more complex function of eukaryotic cells. The Ca2+ sensor in the intracellular loop is known as the Ca2+-binding domain (CBD12). However, how the signaling of the allosteric intracellular Ca2+ binding propagates and results in transmembrane ion transportation still lacks a detailed explanation. Further structural and dynamics characterization of the intracellular loop flanking both sides of CBD12 is therefore imperative. Here, we report the identification and characterization of another structured domain that is N-terminal to CBD12 in the intracellular loop using solution nuclear magnetic resonance (NMR) spectroscopy. The atomistic structure of this domain reveals that two tandem long alpha-helices, connected by a short linker, form a stable cross-over two-helix bundle (THB), resembling an "awareness ribbon". Considering the highly conserved amino acid sequence of the THB domain, the detailed structural and dynamics properties of the THB domain will be common among NCXs from different species and will contribute toward the understanding of the regulatory mechanism of eukaryotic Na+/Ca2+ exchangers.	+
-		+
-	The Intracellular Loop of the Na+/Ca2+ Exchanger Contains an "Awareness Ribbon" Shaped Two-helix Bundle Domain.,Yuan J, Yuan C, Xie M, Yu L, Bruschweiler-Li L, Bruschweiler R Biochemistry. 2018 Jun 13. doi: 10.1021/acs.biochem.8b00300. PMID:29898361<ref>PMID:29898361</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6bv7" style="background-color:#fffaf0;"></div>~~	+
-		+
-	~~==See Also==~~	+
-	*[[Sodium-calcium exchanger\|Sodium-calcium exchanger]]	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Canlf~~]]	+	[[Category: Canis lupus familiaris]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bruschweiler, R]]	+	[[Category: Bruschweiler R]]
-	[[Category: Yuan, C]]	+	[[Category: Yuan C]]
-	[[Category: Yuan, J]]	+	[[Category: Yuan J]]
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Two-helix bundle~~]]	+

OCA at 08:20, 27 November 2019

OCA — Wed, 27 Nov 2019 08:20:47 GMT

←Older revision		Revision as of 08:20, 27 November 2019
Line 1:		Line 1:

	==NMR structure of Sodium/Calcium Exchanger 1 (NCX1) Two-helix Bundle (THB) domain==		==NMR structure of Sodium/Calcium Exchanger 1 (NCX1) Two-helix Bundle (THB) domain==
-	<StructureSection load='6bv7' size='340' side='right' caption='[[6bv7]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='6bv7' size='340' side='right'caption='[[6bv7]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6bv7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Canlf Canlf]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BV7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BV7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6bv7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Canlf Canlf]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BV7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BV7 FirstGlance]. <br>
Line 26:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Canlf]]		[[Category: Canlf]]
		+	[[Category: Large Structures]]
	[[Category: Bruschweiler, R]]		[[Category: Bruschweiler, R]]
	[[Category: Yuan, C]]		[[Category: Yuan, C]]

OCA at 08:00, 21 February 2019

OCA — Thu, 21 Feb 2019 08:00:23 GMT

←Older revision		Revision as of 08:00, 21 February 2019
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 6bv7" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6bv7" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sodium-calcium exchanger\|Sodium-calcium exchanger]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:53, 27 June 2018

OCA — Wed, 27 Jun 2018 05:53:19 GMT

←Older revision		Revision as of 05:53, 27 June 2018
Line 3:		Line 3:
	<StructureSection load='6bv7' size='340' side='right' caption='[[6bv7]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='6bv7' size='340' side='right' caption='[[6bv7]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6bv7]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BV7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BV7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6bv7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Canlf Canlf]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BV7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BV7 FirstGlance]. <br>
-	</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=6bv7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bv7 OCA], [http://pdbe.org/6bv7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bv7 RCSB], [http://www.ebi.ac.uk/pdbsum/6bv7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bv7 ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SLC8A1, NCX1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 CANLF])</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=6bv7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bv7 OCA], [http://pdbe.org/6bv7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bv7 RCSB], [http://www.ebi.ac.uk/pdbsum/6bv7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bv7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/NAC1_CANLF NAC1_CANLF]] Mediates the exchange of one Ca(2+) ion against three to four Na(+) ions across the cell membrane, and thereby contributes to the regulation of cytoplasmic Ca(2+) levels and Ca(2+)-dependent cellular processes (PubMed:1700476, PubMed:1785844, PubMed:9486131, PubMed:17962412). Contributes to Ca(2+) transport during excitation-contraction coupling in muscle. In a first phase, voltage-gated channels mediate the rapid increase of cytoplasmic Ca(2+) levels due to release of Ca(2+) stores from the endoplasmic reticulum. SLC8A1 mediates the export of Ca(2+) from the cell during the next phase, so that cytoplasmic Ca(2+) levels rapidly return to baseline. Required for normal embryonic heart development and the onset of heart contractions (By similarity).[UniProtKB:P70414]<ref>PMID:1700476</ref> <ref>PMID:1785844</ref> <ref>PMID:17962412</ref> <ref>PMID:19332552</ref> <ref>PMID:9486131</ref>		[[http://www.uniprot.org/uniprot/NAC1_CANLF NAC1_CANLF]] Mediates the exchange of one Ca(2+) ion against three to four Na(+) ions across the cell membrane, and thereby contributes to the regulation of cytoplasmic Ca(2+) levels and Ca(2+)-dependent cellular processes (PubMed:1700476, PubMed:1785844, PubMed:9486131, PubMed:17962412). Contributes to Ca(2+) transport during excitation-contraction coupling in muscle. In a first phase, voltage-gated channels mediate the rapid increase of cytoplasmic Ca(2+) levels due to release of Ca(2+) stores from the endoplasmic reticulum. SLC8A1 mediates the export of Ca(2+) from the cell during the next phase, so that cytoplasmic Ca(2+) levels rapidly return to baseline. Required for normal embryonic heart development and the onset of heart contractions (By similarity).[UniProtKB:P70414]<ref>PMID:1700476</ref> <ref>PMID:1785844</ref> <ref>PMID:17962412</ref> <ref>PMID:19332552</ref> <ref>PMID:9486131</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The Na+/Ca2+ exchanger (NCX) is a ubiquitous single-chain membrane protein that plays a major role in regulating the intracellular Ca2+ homeostasis by the counter transport of Na+ and Ca2+ across the cell membrane. Other than its prokaryotic counterpart, which contains only the transmembrane domain and is self-sufficient as an active ion transporter, the eukaryotic NCX protein possesses in addition a large intracellular loop that senses intracellular calcium signals and controls the activation of ion transport across the membrane. This provides a necessary layer of regulation for the more complex function of eukaryotic cells. The Ca2+ sensor in the intracellular loop is known as the Ca2+-binding domain (CBD12). However, how the signaling of the allosteric intracellular Ca2+ binding propagates and results in transmembrane ion transportation still lacks a detailed explanation. Further structural and dynamics characterization of the intracellular loop flanking both sides of CBD12 is therefore imperative. Here, we report the identification and characterization of another structured domain that is N-terminal to CBD12 in the intracellular loop using solution nuclear magnetic resonance (NMR) spectroscopy. The atomistic structure of this domain reveals that two tandem long alpha-helices, connected by a short linker, form a stable cross-over two-helix bundle (THB), resembling an "awareness ribbon". Considering the highly conserved amino acid sequence of the THB domain, the detailed structural and dynamics properties of the THB domain will be common among NCXs from different species and will contribute toward the understanding of the regulatory mechanism of eukaryotic Na+/Ca2+ exchangers.
		+
		+	The Intracellular Loop of the Na+/Ca2+ Exchanger Contains an "Awareness Ribbon" Shaped Two-helix Bundle Domain.,Yuan J, Yuan C, Xie M, Yu L, Bruschweiler-Li L, Bruschweiler R Biochemistry. 2018 Jun 13. doi: 10.1021/acs.biochem.8b00300. PMID:29898361<ref>PMID:29898361</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6bv7" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Canlf]]
	[[Category: Bruschweiler, R]]		[[Category: Bruschweiler, R]]
	[[Category: Yuan, C]]		[[Category: Yuan, C]]

OCA at 05:49, 20 June 2018

OCA — Wed, 20 Jun 2018 05:49:10 GMT

←Older revision		Revision as of 05:49, 20 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6bv7 is ~~ON HOLD~~ ~~until Paper Publication~~	+	==NMR structure of Sodium/Calcium Exchanger 1 (NCX1) Two-helix Bundle (THB) domain==
-		+	<StructureSection load='6bv7' size='340' side='right' caption='[[6bv7]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6bv7]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BV7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BV7 FirstGlance]. <br>
-	~~Description~~:	+	</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=6bv7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bv7 OCA], [http://pdbe.org/6bv7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bv7 RCSB], [http://www.ebi.ac.uk/pdbsum/6bv7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bv7 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NAC1_CANLF NAC1_CANLF]] Mediates the exchange of one Ca(2+) ion against three to four Na(+) ions across the cell membrane, and thereby contributes to the regulation of cytoplasmic Ca(2+) levels and Ca(2+)-dependent cellular processes (PubMed:1700476, PubMed:1785844, PubMed:9486131, PubMed:17962412). Contributes to Ca(2+) transport during excitation-contraction coupling in muscle. In a first phase, voltage-gated channels mediate the rapid increase of cytoplasmic Ca(2+) levels due to release of Ca(2+) stores from the endoplasmic reticulum. SLC8A1 mediates the export of Ca(2+) from the cell during the next phase, so that cytoplasmic Ca(2+) levels rapidly return to baseline. Required for normal embryonic heart development and the onset of heart contractions (By similarity).[UniProtKB:P70414]<ref>PMID:1700476</ref> <ref>PMID:1785844</ref> <ref>PMID:17962412</ref> <ref>PMID:19332552</ref> <ref>PMID:9486131</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bruschweiler, R]]
		+	[[Category: Yuan, C]]
		+	[[Category: Yuan, J]]
		+	[[Category: Membrane protein]]
		+	[[Category: Two-helix bundle]]

OCA at 07:10, 10 January 2018

OCA — Wed, 10 Jan 2018 07:10:47 GMT

←Older revision		Revision as of 07:10, 10 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6bv7 is ON HOLD	+	The entry 6bv7 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6bv7" [edit=sysop:move=sysop]

OCA — Wed, 20 Dec 2017 05:03:10 GMT

Protected "6bv7" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:03, 20 December 2017

OCA: New page: '''Unreleased structure''' The entry 6bv7 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 20 Dec 2017 05:03:09 GMT

New page: '''Unreleased structure''' The entry 6bv7 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6bv7 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]