5yqj - Revision history

OCA at 10:24, 27 March 2024

OCA — Wed, 27 Mar 2024 10:24:46 GMT

←Older revision		Revision as of 10:24, 27 March 2024
Line 1:		Line 1:

	==Crystal structure of the first StARkin domain of Lam4==		==Crystal structure of the first StARkin domain of Lam4==
-	<StructureSection load='5yqj' size='340' side='right' caption='[[5yqj]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='5yqj' size='340' side='right'caption='[[5yqj]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yqj]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YQJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YQJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yqj]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YQJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YQJ FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~LAM4~~, ~~LTC3, YHR080C (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=~~5&~~id=559292 Baker's yeast])~~</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]] 1.5Å</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=5yqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yqj OCA], [~~http~~://pdbe.org/5yqj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yqj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yqj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yqj 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=5yqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yqj OCA], [https://pdbe.org/5yqj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yqj RCSB], [https://www.ebi.ac.uk/pdbsum/5yqj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yqj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/LAM4_YEAST LAM4_YEAST]] May be involved in sterol transfer between intracellular membranes.<ref>PMID:26001273</ref>	+	[https://www.uniprot.org/uniprot/LAM4_YEAST LAM4_YEAST] May be involved in sterol transfer between intracellular membranes.<ref>PMID:26001273</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Membrane contact sites (MCSs) in eukaryotic cells are hotspots for lipid exchange, which is essential for many biological functions, including regulation of membrane properties and protein trafficking. Lipid transfer proteins anchored at membrane contact sites (LAMs) contain sterol-specific lipid transfer domains [StARkin domain (SD)] and multiple targeting modules to specific membrane organelles. Elucidating the structural mechanisms of targeting and ligand recognition by LAMs is important for understanding the interorganelle communication and exchange at MCSs. Here, we determined the crystal structures of the yeast Lam6 pleckstrin homology (PH)-like domain and the SDs of Lam2 and Lam4 in the apo form and in complex with ergosterol. The Lam6 PH-like domain displays a unique PH domain fold with a conserved N-terminal alpha-helix. The Lam6 PH-like domain lacks the basic surface for phosphoinositide binding, but contains hydrophobic patches on its surface, which are critical for targeting to endoplasmic reticulum (ER)-mitochondrial contacts. Structures of the LAM SDs display a helix-grip fold with a hydrophobic cavity and a flexible Omega1-loop as a lid. Ergosterol is bound to the pocket in a head-down orientation, with its hydrophobic acyl group located in the tunnel entrance. The Omega1-loop in an open conformation is essential for ergosterol binding by direct hydrophobic interaction. Structural comparison suggested that the sterol binding mode of the Lam2 SD2 is likely conserved among the sterol transfer proteins of the StARkin superfamily. Structural models of full-length Lam2 correlated with the sterol transport function at the membrane contact sites.	+
-		+
-	Structural basis of sterol recognition and nonvesicular transport by lipid transfer proteins anchored at membrane contact sites.,Tong J, Manik MK, Im YJ Proc Natl Acad Sci U S A. 2018 Jan 16. pii: 1719709115. doi:, 10.1073/pnas.1719709115. PMID:29339490<ref>PMID:29339490</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5yqj" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Baker's yeast~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Im, Y J~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Tong, J S~~]]	+	[[Category: Im YJ]]
-	[[Category: ~~Ligand binding domain]]~~	+	[[Category: Tong JS]]
-	~~[[Category: Lipid transport]]~~	+
-	~~[[Category: Ltc3]]~~	+
-	~~[[Category: Sterol]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 07:02, 15 February 2018

OCA — Thu, 15 Feb 2018 07:02:06 GMT

←Older revision		Revision as of 07:02, 15 February 2018
Line 3:		Line 3:
	<StructureSection load='5yqj' size='340' side='right' caption='[[5yqj]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5yqj' size='340' side='right' caption='[[5yqj]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yqj]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YQJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YQJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yqj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YQJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YQJ 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=5yqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yqj OCA], [http://pdbe.org/5yqj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yqj RCSB], [http://www.ebi.ac.uk/pdbsum/5yqj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yqj ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LAM4, LTC3, YHR080C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=5yqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yqj OCA], [http://pdbe.org/5yqj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yqj RCSB], [http://www.ebi.ac.uk/pdbsum/5yqj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yqj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Baker's yeast]]
	[[Category: Im, Y J]]		[[Category: Im, Y J]]
	[[Category: Tong, J S]]		[[Category: Tong, J S]]

OCA at 05:55, 31 January 2018

OCA — Wed, 31 Jan 2018 05:55:03 GMT

←Older revision		Revision as of 05:55, 31 January 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5yqj is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of the first StARkin domain of Lam4==
		+	<StructureSection load='5yqj' size='340' side='right' caption='[[5yqj]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5yqj]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YQJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YQJ 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=5yqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yqj OCA], [http://pdbe.org/5yqj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yqj RCSB], [http://www.ebi.ac.uk/pdbsum/5yqj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yqj ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LAM4_YEAST LAM4_YEAST]] May be involved in sterol transfer between intracellular membranes.<ref>PMID:26001273</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Membrane contact sites (MCSs) in eukaryotic cells are hotspots for lipid exchange, which is essential for many biological functions, including regulation of membrane properties and protein trafficking. Lipid transfer proteins anchored at membrane contact sites (LAMs) contain sterol-specific lipid transfer domains [StARkin domain (SD)] and multiple targeting modules to specific membrane organelles. Elucidating the structural mechanisms of targeting and ligand recognition by LAMs is important for understanding the interorganelle communication and exchange at MCSs. Here, we determined the crystal structures of the yeast Lam6 pleckstrin homology (PH)-like domain and the SDs of Lam2 and Lam4 in the apo form and in complex with ergosterol. The Lam6 PH-like domain displays a unique PH domain fold with a conserved N-terminal alpha-helix. The Lam6 PH-like domain lacks the basic surface for phosphoinositide binding, but contains hydrophobic patches on its surface, which are critical for targeting to endoplasmic reticulum (ER)-mitochondrial contacts. Structures of the LAM SDs display a helix-grip fold with a hydrophobic cavity and a flexible Omega1-loop as a lid. Ergosterol is bound to the pocket in a head-down orientation, with its hydrophobic acyl group located in the tunnel entrance. The Omega1-loop in an open conformation is essential for ergosterol binding by direct hydrophobic interaction. Structural comparison suggested that the sterol binding mode of the Lam2 SD2 is likely conserved among the sterol transfer proteins of the StARkin superfamily. Structural models of full-length Lam2 correlated with the sterol transport function at the membrane contact sites.

-	~~Authors: Im, Y.J~~., Tong, J.S.	+	Structural basis of sterol recognition and nonvesicular transport by lipid transfer proteins anchored at membrane contact sites.,Tong J, Manik MK, Im YJ Proc Natl Acad Sci U S A. 2018 Jan 16. pii: 1719709115. doi:, 10.1073/pnas.1719709115. PMID:29339490<ref>PMID:29339490</ref>

-	~~Description: Crystal structure~~ of the ~~first StARkin domain~~ of ~~Lam4~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Tong, J.S]]	+	<div class="pdbe-citations 5yqj" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Im, Y.J~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Im, Y J]]
		+	[[Category: Tong, J S]]
		+	[[Category: Ligand binding domain]]
		+	[[Category: Lipid transport]]
		+	[[Category: Ltc3]]
		+	[[Category: Sterol]]
		+	[[Category: Transport protein]]

OCA at 04:55, 29 November 2017

OCA — Wed, 29 Nov 2017 04:55:28 GMT

←Older revision		Revision as of 04:55, 29 November 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Im, Y.J., Tong, J.S.		Authors: Im, Y.J., Tong, J.S.

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

OCA — Wed, 15 Nov 2017 06:16:09 GMT

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

←Older revision

Revision as of 06:16, 15 November 2017

OCA: New page: '''Unreleased structure''' The entry 5yqj is ON HOLD Authors: Im, Y.J., Tong, J.S. Description: Crystal structure of the first StARkin domain of Lam4 [[Category: Unreleased Structures]...

OCA — Wed, 15 Nov 2017 06:16:08 GMT

New page: '''Unreleased structure''' The entry 5yqj is ON HOLD Authors: Im, Y.J., Tong, J.S. Description: Crystal structure of the first StARkin domain of Lam4 [[Category: Unreleased Structures]...

New page

'''Unreleased structure'''

The entry 5yqj is ON HOLD

Authors: Im, Y.J., Tong, J.S.

Description: Crystal structure of the first StARkin domain of Lam4
[[Category: Unreleased Structures]]
[[Category: Tong, J.S]]
[[Category: Im, Y.J]]