6kz3 - Revision history

OCA at 10:44, 27 March 2024

OCA — Wed, 27 Mar 2024 10:44:51 GMT

←Older revision		Revision as of 10:44, 27 March 2024
Line 3:		Line 3:
	<SX load='6kz3' size='340' side='right' viewer='molstar' caption='[[6kz3]], [[Resolution\|resolution]] 3.10Å' scene=''>		<SX load='6kz3' size='340' side='right' viewer='molstar' caption='[[6kz3]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6kz3]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZ3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6KZ3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6kz3]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZ3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KZ3 FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~yebT~~, ~~b1834, JW1823 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=83333 ECOLI])~~</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]] 3.1Å</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=6kz3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kz3 OCA], [~~http~~://pdbe.org/6kz3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6kz3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6kz3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6kz3 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=6kz3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kz3 OCA], [https://pdbe.org/6kz3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kz3 RCSB], [https://www.ebi.ac.uk/pdbsum/6kz3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kz3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/YEBT_ECOLI YEBT_ECOLI]] Component of a transport pathway that contributes to membrane integrity (PubMed:27795327). May directly span the intermembrane space, facilitating the transport of substrates across the periplasm (Probable).<ref>PMID:27795327</ref> <ref>PMID:28388411</ref>	+	[https://www.uniprot.org/uniprot/YEBT_ECOLI YEBT_ECOLI] Component of a transport pathway that contributes to membrane integrity (PubMed:27795327). May directly span the intermembrane space, facilitating the transport of substrates across the periplasm (Probable).<ref>PMID:27795327</ref> <ref>PMID:28388411</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The outer membrane (OM) of Gram-negative bacteria is asymmetric, with lipopolysaccharides (LPSs) on the outer surface and phospholipids (PLs) on the inner surface. This unique organization of OM makes Gram-negative bacteria resistant to many toxic chemicals. How this asymmetric distribution of lipids is maintained has been studied for decades with previous reports of an Mla (Maintenance of OM Lipid Asymmetry) system to be involved. Furthermore, the OM of Gram-negative bacteria is about 20 nm away from inner membrane (IM) where the lipids are synthesized. Therefore, how nascent lipids travel across the periplasmic space and arrive at the inner surface of OM is another interesting question. YebT is a homologue of MlaD in the Mla pathway, but its role in lipid distribution of the OM and IM is largely unknown. Here we report the first high-resolution (~3.0 A) cryo-EM structure of full-length E. coli YebT in a substrate-bound state. Our structure with details of lipid interaction indicates that YebT is a lipid transporter spanning between IM and OM. We also demonstrate the symmetry mismatch in YebT and the existence of many other conformations of YebT revealing the intrinsic dynamics of this lipid channel. And a brief discussion on possible mechanisms of lipid transport is also included.	+
-		+
-	Cryo-EM Structure of a Bacterial Lipid Transporter YebT.,Liu C, Ma J, Wang J, Wang H, Zhang L J Mol Biol. 2020 Feb 14;432(4):1008-1019. doi: 10.1016/j.jmb.2019.12.008. Epub, 2019 Dec 21. PMID:31870848<ref>PMID:31870848</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6kz3" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Liu, C]]	+	[[Category: Liu C]]
-	[[Category: Wang~~, H W~~]]	+	[[Category: Wang HW]]
-	[[Category: Zhang, L]]	+	[[Category: Zhang L]]
-	~~[[Category: Lipid channel]]~~	+
-	~~[[Category: Lipid transport~~]]	+

OCA at 02:33, 11 April 2020

OCA — Sat, 11 Apr 2020 02:33:11 GMT

←Older revision		Revision as of 02:33, 11 April 2020
Line 3:		Line 3:
	<SX load='6kz3' size='340' side='right' viewer='molstar' caption='[[6kz3]], [[Resolution\|resolution]] 3.10Å' scene=''>		<SX load='6kz3' size='340' side='right' viewer='molstar' caption='[[6kz3]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6kz3]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZ3 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6KZ3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6kz3]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZ3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6KZ3 FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">yebT, b1834, JW1823 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">yebT, b1834, JW1823 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=6kz3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kz3 OCA], [http://pdbe.org/6kz3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6kz3 RCSB], [http://www.ebi.ac.uk/pdbsum/6kz3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6kz3 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=6kz3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kz3 OCA], [http://pdbe.org/6kz3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6kz3 RCSB], [http://www.ebi.ac.uk/pdbsum/6kz3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6kz3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 22:28, 6 March 2020

OCA — Fri, 06 Mar 2020 22:28:37 GMT

←Older revision		Revision as of 22:28, 6 March 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6kz3 is ~~ON HOLD~~	+	==YebT domain1-4==
		+	<SX load='6kz3' size='340' side='right' viewer='molstar' caption='[[6kz3]], [[Resolution\|resolution]] 3.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6kz3]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZ3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6KZ3 FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">yebT, b1834, JW1823 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=6kz3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kz3 OCA], [http://pdbe.org/6kz3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6kz3 RCSB], [http://www.ebi.ac.uk/pdbsum/6kz3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6kz3 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/YEBT_ECOLI YEBT_ECOLI]] Component of a transport pathway that contributes to membrane integrity (PubMed:27795327). May directly span the intermembrane space, facilitating the transport of substrates across the periplasm (Probable).<ref>PMID:27795327</ref> <ref>PMID:28388411</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The outer membrane (OM) of Gram-negative bacteria is asymmetric, with lipopolysaccharides (LPSs) on the outer surface and phospholipids (PLs) on the inner surface. This unique organization of OM makes Gram-negative bacteria resistant to many toxic chemicals. How this asymmetric distribution of lipids is maintained has been studied for decades with previous reports of an Mla (Maintenance of OM Lipid Asymmetry) system to be involved. Furthermore, the OM of Gram-negative bacteria is about 20 nm away from inner membrane (IM) where the lipids are synthesized. Therefore, how nascent lipids travel across the periplasmic space and arrive at the inner surface of OM is another interesting question. YebT is a homologue of MlaD in the Mla pathway, but its role in lipid distribution of the OM and IM is largely unknown. Here we report the first high-resolution (~3.0 A) cryo-EM structure of full-length E. coli YebT in a substrate-bound state. Our structure with details of lipid interaction indicates that YebT is a lipid transporter spanning between IM and OM. We also demonstrate the symmetry mismatch in YebT and the existence of many other conformations of YebT revealing the intrinsic dynamics of this lipid channel. And a brief discussion on possible mechanisms of lipid transport is also included.

-	~~Authors~~:	+	Cryo-EM Structure of a Bacterial Lipid Transporter YebT.,Liu C, Ma J, Wang J, Wang H, Zhang L J Mol Biol. 2020 Feb 14;432(4):1008-1019. doi: 10.1016/j.jmb.2019.12.008. Epub, 2019 Dec 21. PMID:31870848<ref>PMID:31870848</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6kz3" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</SX>
		+	[[Category: Ecoli]]
		+	[[Category: Large Structures]]
		+	[[Category: Liu, C]]
		+	[[Category: Wang, H W]]
		+	[[Category: Zhang, L]]
		+	[[Category: Lipid channel]]
		+	[[Category: Lipid transport]]

OCA: Protected "6kz3" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 07:01:28 GMT

Protected "6kz3" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:01, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6kz3 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 07:01:27 GMT

New page: '''Unreleased structure''' The entry 6kz3 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6kz3 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]