3w5a - Revision history

OCA at 05:22, 3 August 2022

OCA — Wed, 03 Aug 2022 05:22:48 GMT

←Older revision		Revision as of 05:22, 3 August 2022
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	==Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state==		==Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state==
-	<StructureSection load='3w5a' size='340' side='right' caption='[[3w5a]], [[Resolution\|resolution]] 3.01Å' scene=''>	+	<StructureSection load='3w5a' size='340' side='right'caption='[[3w5a]], [[Resolution\|resolution]] 3.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w5a]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W5A OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3W5A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w5a]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W5A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W5A FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</scene>, <scene name='pdbligand=TM1:2,3-O-[(1R)-2,4,6-TRINITROCYCLOHEXA-2,5-DIENE-1,1-DIYL]ADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>TM1</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</scene>, <scene name='pdbligand=TM1:2,3-O-[(1R)-2,4,6-TRINITROCYCLOHEXA-2,5-DIENE-1,1-DIYL]ADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>TM1</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w5b\|3w5b]], [[3w5c\|3w5c]], [[3w5d\|3w5d]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3w5b\|3w5b]], [[3w5c\|3w5c]], [[3w5d\|3w5d]]</div></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=3w5a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w5a OCA], [~~http~~://pdbe.org/3w5a PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3w5a RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3w5a PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3w5a 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=3w5a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w5a OCA], [https://pdbe.org/3w5a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w5a RCSB], [https://www.ebi.ac.uk/pdbsum/3w5a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w5a ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	==See Also==		==See Also==
-	*[[ATPase\|ATPase]]	+	*[[ATPase 3D structures\|ATPase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Oryctolagus cuniculus]]		[[Category: Oryctolagus cuniculus]]
	[[Category: Hirata, A]]		[[Category: Hirata, A]]

OCA at 11:57, 4 August 2016

OCA — Thu, 04 Aug 2016 11:57:58 GMT

←Older revision		Revision as of 11:57, 4 August 2016
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-	{{STRUCTURE_3w5a\| PDB=3w5a \| SCENE= }}
-	===Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state===
-	{{ABSTRACT_PUBMED_23455422}}

-	==~~About this Structure~~==	+	==Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state==
-	[[3w5a]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W5A OCA].	+	<StructureSection load='3w5a' size='340' side='right' caption='[[3w5a]], [[Resolution\|resolution]] 3.01Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3w5a]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W5A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W5A FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</scene>, <scene name='pdbligand=TM1:2,3-O-[(1R)-2,4,6-TRINITROCYCLOHEXA-2,5-DIENE-1,1-DIYL]ADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>TM1</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w5b\|3w5b]], [[3w5c\|3w5c]], [[3w5d\|3w5d]]</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=3w5a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w5a OCA], [http://pdbe.org/3w5a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3w5a RCSB], [http://www.ebi.ac.uk/pdbsum/3w5a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3w5a ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	P-type ATPases are ATP-powered ion pumps that establish ion concentration gradients across biological membranes, and are distinct from other ATPases in that the reaction cycle includes an autophosphorylation step. The best studied is Ca(2+)-ATPase from muscle sarcoplasmic reticulum (SERCA1a), a Ca(2+) pump that relaxes muscle cells after contraction, and crystal structures have been determined for most of the reaction intermediates. An important outstanding structure is that of the E1 intermediate, which has empty high-affinity Ca(2+)-binding sites ready to accept new cytosolic Ca(2+). In the absence of Ca(2+) and at pH 7 or higher, the ATPase is predominantly in E1, not in E2 (low affinity for Ca(2+)), and if millimolar Mg(2+) is present, one Mg(2+) is expected to occupy one of the Ca(2+)-binding sites with a millimolar dissociation constant. This Mg(2+) accelerates the reaction cycle, not permitting phosphorylation without Ca(2+) binding. Here we describe the crystal structure of native SERCA1a (from rabbit) in this E1.Mg(2+) state at 3.0 A resolution in addition to crystal structures of SERCA1a in E2 free from exogenous inhibitors, and address the structural basis of the activation signal for phosphoryl transfer. Unexpectedly, sarcolipin, a small regulatory membrane protein of Ca(2+)-ATPase, is bound, stabilizing the E1.Mg(2+) state. Sarcolipin is a close homologue of phospholamban, which is a critical mediator of beta-adrenergic signal in Ca(2+) regulation in heart (for reviews, see, for example, refs 8-10), and seems to play an important role in muscle-based thermogenesis. We also determined the crystal structure of recombinant SERCA1a devoid of sarcolipin, and describe the structural basis of inhibition by sarcolipin/phospholamban. Thus, the crystal structures reported here fill a gap in the structural elucidation of the reaction cycle and provide a solid basis for understanding the physiological regulation of the calcium pump.
		+
		+	Crystal structures of the calcium pump and sarcolipin in the Mg2+-bound E1 state.,Toyoshima C, Iwasawa S, Ogawa H, Hirata A, Tsueda J, Inesi G Nature. 2013 Mar 14;495(7440):260-4. doi: 10.1038/nature11899. Epub 2013 Mar 3. PMID:23455422<ref>PMID:23455422</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 3w5a" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[ATPase\|ATPase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Oryctolagus cuniculus]]		[[Category: Oryctolagus cuniculus]]
-	[[Category: Hirata, A.]]	+	[[Category: Hirata, A]]
-	[[Category: Inesi, G.]]	+	[[Category: Inesi, G]]
-	[[Category: Iwasawa, S.]]	+	[[Category: Iwasawa, S]]
-	[[Category: Ogawa, H.]]	+	[[Category: Ogawa, H]]
-	[[Category: Toyoshima, C.]]	+	[[Category: Toyoshima, C]]
-	[[Category: Tsueda, J.]]	+	[[Category: Tsueda, J]]
	[[Category: Atp binding]]		[[Category: Atp binding]]
	[[Category: Calcium binding]]		[[Category: Calcium binding]]

OCA at 07:52, 27 March 2013

OCA — Wed, 27 Mar 2013 07:52:51 GMT

←Older revision		Revision as of 07:52, 27 March 2013
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-	[[Image:3w5a.jpg\|left\|200px]]
-
	{{STRUCTURE_3w5a\| PDB=3w5a \| SCENE= }}		{{STRUCTURE_3w5a\| PDB=3w5a \| SCENE= }}
-
	===Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state===		===Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state===
-		+	{{ABSTRACT_PUBMED_23455422}}

	==About this Structure==		==About this Structure==

OCA at 14:20, 6 March 2013

OCA — Wed, 06 Mar 2013 14:20:16 GMT

←Older revision		Revision as of 14:20, 6 March 2013
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-	~~'''Unreleased structure'''~~	+	[[Image:3w5a.jpg\|left\|200px]]

-	~~The entry~~ 3w5a ~~is ON HOLD~~	+	{{STRUCTURE_3w5a\| PDB=3w5a \| SCENE= }}

-	~~Authors: Toyoshima, C., Iwasawa, S., Ogawa, H., Hirata, A., Tsueda, J., Inesi, G~~.	+	===Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state===

-	~~Description: Crystal~~ structure ~~of the calcium pump and sarcolipin~~ from ~~rabbit fast twitch skeletal muscle in the E1~~.~~Mg2+ state~~	+
		+	==About this Structure==
		+	[[3w5a]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W5A OCA].
		+	[[Category: Oryctolagus cuniculus]]
		+	[[Category: Hirata, A.]]
		+	[[Category: Inesi, G.]]
		+	[[Category: Iwasawa, S.]]
		+	[[Category: Ogawa, H.]]
		+	[[Category: Toyoshima, C.]]
		+	[[Category: Tsueda, J.]]
		+	[[Category: Atp binding]]
		+	[[Category: Calcium binding]]
		+	[[Category: Calcium transport]]
		+	[[Category: Endoplasmic reticulum]]
		+	[[Category: Hydrolase]]
		+	[[Category: Metal transport-membrane protein complex]]
		+	[[Category: P-type atpase]]
		+	[[Category: Sarcolipin]]

OCA: Protected "3w5a" [edit=sysop:move=sysop]

OCA — Wed, 06 Feb 2013 12:13:53 GMT

Protected "3w5a" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:13, 6 February 2013

OCA: New page: '''Unreleased structure''' The entry 3w5a is ON HOLD Authors: Toyoshima, C., Iwasawa, S., Ogawa, H., Hirata, A., Tsueda, J., Inesi, G. Description: Crystal structure of the calcium pum...

OCA — Wed, 06 Feb 2013 12:13:52 GMT

New page: '''Unreleased structure''' The entry 3w5a is ON HOLD Authors: Toyoshima, C., Iwasawa, S., Ogawa, H., Hirata, A., Tsueda, J., Inesi, G. Description: Crystal structure of the calcium pum...

New page

'''Unreleased structure'''

The entry 3w5a is ON HOLD

Authors: Toyoshima, C., Iwasawa, S., Ogawa, H., Hirata, A., Tsueda, J., Inesi, G.

Description: Crystal structure of the calcium pump and sarcolipin from rabbit fast twitch skeletal muscle in the E1.Mg2+ state