6v1s - Revision history

OCA at 14:35, 6 March 2024

2024-03-06T14:35:30Z

←Older revision		Revision as of 14:35, 6 March 2024
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	<StructureSection load='6v1s' size='340' side='right'caption='[[6v1s]], [[Resolution\|resolution]] 3.80Å' scene=''>		<StructureSection load='6v1s' size='340' side='right'caption='[[6v1s]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6v1s]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_difficilis"_hall_and_o'toole_1935 "bacillus difficilis" hall and o'toole 1935~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V1S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6V1S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6v1s]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridioides_difficile Clostridioides difficile]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6V1S FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CA:CALCIUM+ION'>CA</scene~~></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]] 3.8Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>cdtB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1496~~ "~~Bacillus difficilis~~" ~~Hall and O~~'~~Toole 1935]), cdtA, E5N70_18065, SAMEA897066_00723 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1496 "Bacillus difficilis" Hall and O'Toole 1935])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=6v1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v1s OCA], [~~http~~://pdbe.org/6v1s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6v1s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6v1s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6v1s 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=6v1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v1s OCA], [https://pdbe.org/6v1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6v1s RCSB], [https://www.ebi.ac.uk/pdbsum/6v1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6v1s ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/A8DS70_CLODI A8DS70_CLODI]
-	Clostridioides difficile is a Gram-positive, pathogenic bacterium and a prominent cause of hospital-acquired diarrhea in the United States. The symptoms of C. difficile infection are caused by the activity of three large toxins known as toxin A (TcdA), toxin B (TcdB), and the C. difficile transferase toxin (CDT). Reported here is a 3.8-A cryo-electron microscopy (cryo-EM) structure of CDT, a bipartite toxin comprised of the proteins CDTa and CDTb. We observe a single molecule of CDTa bound to a CDTb heptamer. The formation of the CDT complex relies on the interaction of an N-terminal adaptor and pseudoenzyme domain of CDTa with six subunits of the CDTb heptamer. CDTb is observed in a preinsertion state, a conformation observed in the transition of prepore to beta-barrel pore, although we also observe a single bound CDTa in the prepore and beta-barrel conformations of CDTb. The binding interaction appears to prime CDTa for translocation as the adaptor subdomain enters the lumen of the preinsertion state channel. These structural observations advance the understanding of how a single protein, CDTb, can mediate the delivery of a large enzyme, CDTa, into the cytosol of mammalian cells.	+
-		+
-	Structural elucidation of the Clostridioides difficile transferase toxin reveals a single-site binding mode for the enzyme.,Sheedlo MJ, Anderson DM, Thomas AK, Lacy DB Proc Natl Acad Sci U S A. 2020 Mar 2. pii: ~~1920555117. doi:, 10.1073~~/~~pnas.1920555117. PMID:32123082<ref>PMID:32123082<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6v1s" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus difficilis hall and o'toole 1935~~]]	+	[[Category: Clostridioides difficile]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Anderson~~, D M~~]]	+	[[Category: Anderson DM]]
-	[[Category: Lacy~~, D B~~]]	+	[[Category: Lacy DB]]
-	[[Category: Sheedlo~~, M J~~]]	+	[[Category: Sheedlo MJ]]
-	[[Category: Thomas~~, A K]]~~	+	[[Category: Thomas AK]]
-	~~[[Category: Binary]]~~	+
-	~~[[Category: Cdt]]~~	+
-	~~[[Category: Clostridioide]]~~	+
-	~~[[Category: Clostridium]]~~	+
-	~~[[Category: Iota]]~~	+
-	~~[[Category: Toxin]]~~	+
-	~~[[Category: Translocase~~]]	+

OCA at 09:48, 1 April 2020

2020-04-01T09:48:32Z

←Older revision		Revision as of 09:48, 1 April 2020
Line 3:		Line 3:
	<StructureSection load='6v1s' size='340' side='right'caption='[[6v1s]], [[Resolution\|resolution]] 3.80Å' scene=''>		<StructureSection load='6v1s' size='340' side='right'caption='[[6v1s]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6v1s]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V1S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6V1S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6v1s]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_difficilis"_hall_and_o'toole_1935 "bacillus difficilis" hall and o'toole 1935]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V1S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6V1S FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdtB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1496 "Bacillus difficilis" Hall and O'Toole 1935]), cdtA, E5N70_18065, SAMEA897066_00723 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1496 "Bacillus difficilis" Hall and O'Toole 1935])</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=6v1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v1s OCA], [http://pdbe.org/6v1s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v1s RCSB], [http://www.ebi.ac.uk/pdbsum/6v1s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v1s ProSAT]</span></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=6v1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v1s OCA], [http://pdbe.org/6v1s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v1s RCSB], [http://www.ebi.ac.uk/pdbsum/6v1s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v1s ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus difficilis hall and o'toole 1935]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Anderson, D M]]		[[Category: Anderson, D M]]

OCA at 09:59, 18 March 2020

2020-03-18T09:59:22Z

←Older revision		Revision as of 09:59, 18 March 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6v1s is ~~ON HOLD until Paper~~ Publication	+	==Structure of the Clostridioides difficile transferase toxin==
		+	<StructureSection load='6v1s' size='340' side='right'caption='[[6v1s]], [[Resolution\|resolution]] 3.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6v1s]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V1S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6V1S FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=6v1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v1s OCA], [http://pdbe.org/6v1s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v1s RCSB], [http://www.ebi.ac.uk/pdbsum/6v1s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v1s ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Clostridioides difficile is a Gram-positive, pathogenic bacterium and a prominent cause of hospital-acquired diarrhea in the United States. The symptoms of C. difficile infection are caused by the activity of three large toxins known as toxin A (TcdA), toxin B (TcdB), and the C. difficile transferase toxin (CDT). Reported here is a 3.8-A cryo-electron microscopy (cryo-EM) structure of CDT, a bipartite toxin comprised of the proteins CDTa and CDTb. We observe a single molecule of CDTa bound to a CDTb heptamer. The formation of the CDT complex relies on the interaction of an N-terminal adaptor and pseudoenzyme domain of CDTa with six subunits of the CDTb heptamer. CDTb is observed in a preinsertion state, a conformation observed in the transition of prepore to beta-barrel pore, although we also observe a single bound CDTa in the prepore and beta-barrel conformations of CDTb. The binding interaction appears to prime CDTa for translocation as the adaptor subdomain enters the lumen of the preinsertion state channel. These structural observations advance the understanding of how a single protein, CDTb, can mediate the delivery of a large enzyme, CDTa, into the cytosol of mammalian cells.

-	~~Authors~~:	+	Structural elucidation of the Clostridioides difficile transferase toxin reveals a single-site binding mode for the enzyme.,Sheedlo MJ, Anderson DM, Thomas AK, Lacy DB Proc Natl Acad Sci U S A. 2020 Mar 2. pii: 1920555117. doi:, 10.1073/pnas.1920555117. PMID:32123082<ref>PMID:32123082</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6v1s" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Anderson, D M]]
		+	[[Category: Lacy, D B]]
		+	[[Category: Sheedlo, M J]]
		+	[[Category: Thomas, A K]]
		+	[[Category: Binary]]
		+	[[Category: Cdt]]
		+	[[Category: Clostridioide]]
		+	[[Category: Clostridium]]
		+	[[Category: Iota]]
		+	[[Category: Toxin]]
		+	[[Category: Translocase]]

OCA at 05:33, 4 March 2020

2020-03-04T05:33:49Z

←Older revision		Revision as of 05:33, 4 March 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6v1s is ON HOLD	+	The entry 6v1s is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6v1s" [edit=sysop:move=sysop]

2019-11-27T05:29:39Z

Protected "6v1s" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:29, 27 November 2019

OCA: New page: '''Unreleased structure''' The entry 6v1s is ON HOLD Authors: Description: Category: Unreleased Structures

2019-11-27T05:29:38Z

New page: '''Unreleased structure''' The entry 6v1s is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6v1s is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]