6mru - Revision history

OCA at 14:44, 13 March 2024

OCA — Wed, 13 Mar 2024 14:44:43 GMT

←Older revision		Revision as of 14:44, 13 March 2024
Line 3:		Line 3:
	<SX load='6mru' size='340' side='right' viewer='molstar' caption='[[6mru]], [[Resolution\|resolution]] 3.20Å' scene=''>		<SX load='6mru' size='340' side='right' viewer='molstar' caption='[[6mru]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mru]] is a 13 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=6MRU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6MRU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mru]] is a 13 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=6MRU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MRU FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~hlyE~~, ~~clyA, hpr, sheA, ycgD, b1182, JW5181 (~~[~~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]] 3.2Å</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=6mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mru OCA], [~~http~~://pdbe.org/6mru PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6mru RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6mru PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6mru 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=6mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mru OCA], [https://pdbe.org/6mru PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mru RCSB], [https://www.ebi.ac.uk/pdbsum/6mru PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mru ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/HLYE_ECOLI HLYE_ECOLI]] Toxin, which has some hemolytic activity towards mammalian cells. Acts by forming a pore-like structure upon contact with mammalian cells.<ref>PMID:14532000</ref>	+	[https://www.uniprot.org/uniprot/HLYE_ECOLI HLYE_ECOLI] Toxin, which has some hemolytic activity towards mammalian cells. Acts by forming a pore-like structure upon contact with mammalian cells.<ref>PMID:14532000</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Pore-forming proteins (PFPs) represent a functionally important protein family, that are found in organisms from viruses to humans. As a major branch of PFPs, bacteria pore-forming toxins (PFTs) permeabilize membranes and usually cause the death of target cells. E. coli hemolysin ClyA is the first member with the pore complex structure solved among alpha-PFTs, employing alpha-helices as transmembrane elements. ClyA is proposed to form pores composed of various numbers of protomers. With high-resolution cryo-EM structures, we observe that ClyA pore complexes can exist as newly confirmed oligomers of a tridecamer and a tetradecamer, at estimated resolutions of 3.2 A and 4.3 A, respectively. The 2.8 A cryo-EM structure of a dodecamer dramatically improves the existing structural model. Structural analysis indicates that protomers from distinct oligomers resemble each other and neighboring protomers adopt a conserved interaction mode. We also show a stabilized intermediate state of ClyA during the transition process from soluble monomers to pore complexes. Unexpectedly, even without the formation of mature pore complexes, ClyA can permeabilize membranes and allow leakage of particles less than ~400 Daltons. In addition, we are the first to show that ClyA forms pore complexes in the presence of cholesterol within artificial liposomes. These findings provide new mechanistic insights into the dynamic process of pore assembly for the prototypical alpha-PFT ClyA.	+
-		+
-	High-resolution cryo-EM structures of the E. coli hemolysin ClyA oligomers.,Peng W, de Souza Santos M, Li Y, Tomchick DR, Orth K PLoS One. 2019 May 2;14(5):e0213423. doi: 10.1371/journal.pone.0213423., eCollection 2019. PMID:31048915<ref>PMID:31048915</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6mru" style="background-color:#fffaf0;"></div~~>	+

	==See Also==		==See Also==
Line 25:		Line 16:
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Li, Y]]	+	[[Category: Li Y]]
-	[[Category: Orth, K]]	+	[[Category: Orth K]]
-	[[Category: Peng, W]]	+	[[Category: Peng W]]
-	~~[[Category: Santos, M de Souza~~]]	+	[[Category: Tomchick DR]]
-	[[Category: Tomchick~~, D R~~]]	+	[[Category: De Souza Santos M]]
-	[[Category: ~~Membrane protein]]~~	+
-	~~[[Category: Pore-forming toxin]]~~	+
-	~~[[Category: Toxin~~]]	+

OCA at 02:53, 11 April 2020

OCA — Sat, 11 Apr 2020 02:53:25 GMT

←Older revision		Revision as of 02:53, 11 April 2020
Line 3:		Line 3:
	<SX load='6mru' size='340' side='right' viewer='molstar' caption='[[6mru]], [[Resolution\|resolution]] 3.20Å' scene=''>		<SX load='6mru' size='340' side='right' viewer='molstar' caption='[[6mru]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mru]] is a 13 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=6MRU OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6MRU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mru]] is a 13 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=6MRU OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6MRU FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hlyE, clyA, hpr, sheA, ycgD, b1182, JW5181 ([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">hlyE, clyA, hpr, sheA, ycgD, b1182, JW5181 ([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=6mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mru OCA], [http://pdbe.org/6mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mru RCSB], [http://www.ebi.ac.uk/pdbsum/6mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mru 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=6mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mru OCA], [http://pdbe.org/6mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mru RCSB], [http://www.ebi.ac.uk/pdbsum/6mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mru ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 22:36, 6 March 2020

OCA — Fri, 06 Mar 2020 22:36:58 GMT

←Older revision		Revision as of 22:36, 6 March 2020
Line 1:		Line 1:

	==13-meric ClyA pore complex==		==13-meric ClyA pore complex==
-	<~~StructureSection~~ load='6mru' size='340' side='right'caption='[[6mru]], [[Resolution\|resolution]] 3.20Å' scene=''>	+	<SX load='6mru' size='340' side='right' viewer='molstar' caption='[[6mru]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6mru]] is a 13 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=6MRU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MRU FirstGlance]. <br>		<table><tr><td colspan='2'>[[6mru]] is a 13 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=6MRU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MRU FirstGlance]. <br>
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 6mru" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6mru" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Hemolysin 3D structures\|Hemolysin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Ecoli]]		[[Category: Ecoli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 07:32, 21 May 2019

OCA — Tue, 21 May 2019 07:32:07 GMT

←Older revision		Revision as of 07:32, 21 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6mru is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==13-meric ClyA pore complex==
		+	<StructureSection load='6mru' size='340' side='right'caption='[[6mru]], [[Resolution\|resolution]] 3.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6mru]] is a 13 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=6MRU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MRU FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hlyE, clyA, hpr, sheA, ycgD, b1182, JW5181 ([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=6mru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mru OCA], [http://pdbe.org/6mru PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mru RCSB], [http://www.ebi.ac.uk/pdbsum/6mru PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mru ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HLYE_ECOLI HLYE_ECOLI]] Toxin, which has some hemolytic activity towards mammalian cells. Acts by forming a pore-like structure upon contact with mammalian cells.<ref>PMID:14532000</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pore-forming proteins (PFPs) represent a functionally important protein family, that are found in organisms from viruses to humans. As a major branch of PFPs, bacteria pore-forming toxins (PFTs) permeabilize membranes and usually cause the death of target cells. E. coli hemolysin ClyA is the first member with the pore complex structure solved among alpha-PFTs, employing alpha-helices as transmembrane elements. ClyA is proposed to form pores composed of various numbers of protomers. With high-resolution cryo-EM structures, we observe that ClyA pore complexes can exist as newly confirmed oligomers of a tridecamer and a tetradecamer, at estimated resolutions of 3.2 A and 4.3 A, respectively. The 2.8 A cryo-EM structure of a dodecamer dramatically improves the existing structural model. Structural analysis indicates that protomers from distinct oligomers resemble each other and neighboring protomers adopt a conserved interaction mode. We also show a stabilized intermediate state of ClyA during the transition process from soluble monomers to pore complexes. Unexpectedly, even without the formation of mature pore complexes, ClyA can permeabilize membranes and allow leakage of particles less than ~400 Daltons. In addition, we are the first to show that ClyA forms pore complexes in the presence of cholesterol within artificial liposomes. These findings provide new mechanistic insights into the dynamic process of pore assembly for the prototypical alpha-PFT ClyA.

-	~~Authors~~:	+	High-resolution cryo-EM structures of the E. coli hemolysin ClyA oligomers.,Peng W, de Souza Santos M, Li Y, Tomchick DR, Orth K PLoS One. 2019 May 2;14(5):e0213423. doi: 10.1371/journal.pone.0213423., eCollection 2019. PMID:31048915<ref>PMID:31048915</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6mru" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ecoli]]
		+	[[Category: Large Structures]]
		+	[[Category: Li, Y]]
		+	[[Category: Orth, K]]
		+	[[Category: Peng, W]]
		+	[[Category: Santos, M de Souza]]
		+	[[Category: Tomchick, D R]]
		+	[[Category: Membrane protein]]
		+	[[Category: Pore-forming toxin]]
		+	[[Category: Toxin]]

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

OCA — Wed, 24 Oct 2018 04:32:33 GMT

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

←Older revision

Revision as of 04:32, 24 October 2018

OCA: New page: '''Unreleased structure''' The entry 6mru is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 24 Oct 2018 04:32:32 GMT

New page: '''Unreleased structure''' The entry 6mru is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6mru is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]