6oku - Revision history

OCA at 09:24, 20 March 2024

2024-03-20T09:24:41Z

←Older revision		Revision as of 09:24, 20 March 2024
Line 3:		Line 3:
	<SX load='6oku' size='340' side='right' viewer='molstar' caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>		<SX load='6oku' size='340' side='right' viewer='molstar' caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oku]] is a 7 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=6OKU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6OKU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oku]] is a 7 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=6OKU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OKU FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[6o2o\|6o2o]], [[6o2n\|6o2n]], [[6o2m\|6o2m]], [[6okt\|6okt]], [[6okr\|6okr]], [[6oks\|6oks]]</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])~~</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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [https://pdbe.org/6oku PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [https://www.ebi.ac.uk/pdbsum/6oku PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku 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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [~~http~~://pdbe.org/6oku PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6oku PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku 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 (formerly Clostridium) difficile is a Gram-positive, spore-forming anaerobe and a leading cause of hospital-acquired infection and gastroenteritis-associated death in US hospitals(1). The disease state is usually preceded by disruption of the host microbiome in response to antibiotic treatment and is characterized by mild to severe diarrhoea. C. difficile infection is dependent on the secretion of one or more AB-type toxins: toxin A (TcdA), toxin B (TcdB) and the C. difficile transferase toxin (CDT)(2). Whereas TcdA and TcdB are considered the primary virulence factors, recent studies suggest that CDT increases the severity of C. difficile infection in some of the most problematic clinical strains(3). To better understand how CDT functions, we used cryo-electron microscopy to define the structure of CDTb, the cell-binding component of CDT. We obtained structures of several oligomeric forms that highlight the conformational changes that enable conversion from a prepore to a beta-barrel pore. The structural analysis also reveals a glycan-binding domain and residues involved in binding the host-cell receptor, lipolysis-stimulated lipoprotein receptor. Together, these results provide a framework to understand how CDT functions at the host cell interface.	+
-		+
-	~~Structural insights into the transition of Clostridioides difficile binary toxin from prepore to pore.,Anderson DM, Sheedlo MJ, Jensen JL, Lacy DB Nat Microbiol. 2020 Jan;5(1):102-107. doi: 10.1038~~/~~s41564-019-0601-8. Epub 2019, Nov 11. PMID:31712627<ref>PMID:31712627<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6oku" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</SX>		</SX>
-	[[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: Binary]]~~	+
-	~~[[Category: Cdtb]]~~	+
-	~~[[Category: Clostridium]]~~	+
-	~~[[Category: Difficil]]~~	+
-	~~[[Category: Toxin]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 05:48, 13 May 2020

2020-05-13T05:48:33Z

←Older revision		Revision as of 05:48, 13 May 2020
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [http://pdbe.org/6oku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [http://www.ebi.ac.uk/pdbsum/6oku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku 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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [http://pdbe.org/6oku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [http://www.ebi.ac.uk/pdbsum/6oku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Clostridioides (formerly Clostridium) difficile is a Gram-positive, spore-forming anaerobe and a leading cause of hospital-acquired infection and gastroenteritis-associated death in US hospitals(1). The disease state is usually preceded by disruption of the host microbiome in response to antibiotic treatment and is characterized by mild to severe diarrhoea. C. difficile infection is dependent on the secretion of one or more AB-type toxins: toxin A (TcdA), toxin B (TcdB) and the C. difficile transferase toxin (CDT)(2). Whereas TcdA and TcdB are considered the primary virulence factors, recent studies suggest that CDT increases the severity of C. difficile infection in some of the most problematic clinical strains(3). To better understand how CDT functions, we used cryo-electron microscopy to define the structure of CDTb, the cell-binding component of CDT. We obtained structures of several oligomeric forms that highlight the conformational changes that enable conversion from a prepore to a beta-barrel pore. The structural analysis also reveals a glycan-binding domain and residues involved in binding the host-cell receptor, lipolysis-stimulated lipoprotein receptor. Together, these results provide a framework to understand how CDT functions at the host cell interface.
		+
		+	Structural insights into the transition of Clostridioides difficile binary toxin from prepore to pore.,Anderson DM, Sheedlo MJ, Jensen JL, Lacy DB Nat Microbiol. 2020 Jan;5(1):102-107. doi: 10.1038/s41564-019-0601-8. Epub 2019, Nov 11. PMID:31712627<ref>PMID:31712627</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6oku" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</SX>		</SX>

OCA at 04:03, 11 April 2020

2020-04-11T04:03:27Z

←Older revision		Revision as of 04:03, 11 April 2020
Line 3:		Line 3:
	<SX load='6oku' size='340' side='right' viewer='molstar' caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>		<SX load='6oku' size='340' side='right' viewer='molstar' caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oku]] is a 7 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=6OKU OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6OKU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oku]] is a 7 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=6OKU OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OKU FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6o2o\|6o2o]], [[6o2n\|6o2n]], [[6o2m\|6o2m]], [[6okt\|6okt]], [[6okr\|6okr]], [[6oks\|6oks]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6o2o\|6o2o]], [[6o2n\|6o2n]], [[6o2m\|6o2m]], [[6okt\|6okt]], [[6okr\|6okr]], [[6oks\|6oks]]</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])</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])</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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [http://pdbe.org/6oku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [http://www.ebi.ac.uk/pdbsum/6oku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku 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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [http://pdbe.org/6oku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [http://www.ebi.ac.uk/pdbsum/6oku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 23:13, 6 March 2020

2020-03-06T23:13:59Z

←Older revision		Revision as of 23:13, 6 March 2020
Line 1:		Line 1:

	==CDTb Double Heptamer Long Form Mask 3 Modeled from Cryo-EM Map Reconstructed using C7 Symmetry==		==CDTb Double Heptamer Long Form Mask 3 Modeled from Cryo-EM Map Reconstructed using C7 Symmetry==
-	<~~StructureSection~~ load='6oku' size='340' side='right'caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>	+	<SX load='6oku' size='340' side='right' viewer='molstar' caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6oku]] is a 7 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=6OKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OKU FirstGlance]. <br>		<table><tr><td colspan='2'>[[6oku]] is a 7 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=6OKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OKU FirstGlance]. <br>
Line 9:		Line 9:
	</table>		</table>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Bacillus difficilis hall and o'toole 1935]]		[[Category: Bacillus difficilis hall and o'toole 1935]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 12:03, 18 December 2019

2019-12-18T12:03:55Z

←Older revision		Revision as of 12:03, 18 December 2019
Line 3:		Line 3:
	<StructureSection load='6oku' size='340' side='right'caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>		<StructureSection load='6oku' size='340' side='right'caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oku]] is a 7 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OKU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oku]] is a 7 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=6OKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OKU FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6o2o\|6o2o]], [[6o2n\|6o2n]], [[6o2m\|6o2m]], [[6okt\|6okt]], [[6okr\|6okr]], [[6oks\|6oks]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6o2o\|6o2o]], [[6o2n\|6o2n]], [[6o2m\|6o2m]], [[6okt\|6okt]], [[6okr\|6okr]], [[6oks\|6oks]]</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])</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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [http://pdbe.org/6oku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [http://www.ebi.ac.uk/pdbsum/6oku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku 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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [http://pdbe.org/6oku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [http://www.ebi.ac.uk/pdbsum/6oku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku ProSAT]</span></td></tr>
	</table>		</table>
	__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 09:06, 30 October 2019

2019-10-30T09:06:51Z

←Older revision		Revision as of 09:06, 30 October 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6oku ~~is ON HOLD~~	+	==CDTb Double Heptamer Long Form Mask 3 Modeled from Cryo-EM Map Reconstructed using C7 Symmetry==
-		+	<StructureSection load='6oku' size='340' side='right'caption='[[6oku]], [[Resolution\|resolution]] 3.80Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6oku]] is a 7 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OKU FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6o2o\|6o2o]], [[6o2n\|6o2n]], [[6o2m\|6o2m]], [[6okt\|6okt]], [[6okr\|6okr]], [[6oks\|6oks]]</td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6oku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oku OCA], [http://pdbe.org/6oku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oku RCSB], [http://www.ebi.ac.uk/pdbsum/6oku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oku ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Anderson, D M]]
		+	[[Category: Lacy, D B]]
		+	[[Category: Sheedlo, M J]]
		+	[[Category: Binary]]
		+	[[Category: Cdtb]]
		+	[[Category: Clostridium]]
		+	[[Category: Difficil]]
		+	[[Category: Toxin]]
		+	[[Category: Transferase]]

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

2019-04-24T05:00:29Z

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

←Older revision

Revision as of 05:00, 24 April 2019

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

2019-04-24T05:00:28Z

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

New page

'''Unreleased structure'''

The entry 6oku is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]