6jzj - Revision history

OCA at 10:22, 22 November 2023

OCA — Wed, 22 Nov 2023 10:22:22 GMT

←Older revision		Revision as of 10:22, 22 November 2023
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	<StructureSection load='6jzj' size='340' side='right'caption='[[6jzj]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='6jzj' size='340' side='right'caption='[[6jzj]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6jzj]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Porgt Porgt~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JZJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6JZJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jzj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Porphyromonas_gingivalis_TDC60 Porphyromonas gingivalis TDC60]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JZJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JZJ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~</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]] 1.6Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~fimA (type II) ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=1030843 PORGT])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6jzj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jzj OCA], [~~http~~://pdbe.org/6jzj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6jzj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6jzj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6jzj 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=6jzj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jzj OCA], [https://pdbe.org/6jzj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jzj RCSB], [https://www.ebi.ac.uk/pdbsum/6jzj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jzj ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q4W6Y8_PORGN Q4W6Y8_PORGN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Porgt~~]]	+	[[Category: Porphyromonas gingivalis TDC60]]
-	[[Category: Imada, K]]	+	[[Category: Imada K]]
-	[[Category: Nakayam, K]]	+	[[Category: Nakayam K]]
-	[[Category: Okada, K]]	+	[[Category: Okada K]]
-	[[Category: Shoji, M]]	+	[[Category: Shoji M]]
-	~~[[Category: Cell adhesion]]~~	+
-	~~[[Category: Major fimbrial subunit protein]]~~	+
-	~~[[Category: Type v pili~~]]	+

OCA at 06:57, 29 April 2020

OCA — Wed, 29 Apr 2020 06:57:55 GMT

←Older revision		Revision as of 06:57, 29 April 2020
Line 1:		Line 1:

	==Structure of FimA type-2 (FimA2) prepilin of the type V major fimbrium==		==Structure of FimA type-2 (FimA2) prepilin of the type V major fimbrium==
-	<StructureSection load='6jzj' size='340' side='right'caption='[[6jzj]]' scene=''>	+	<StructureSection load='6jzj' size='340' side='right'caption='[[6jzj]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JZJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6JZJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jzj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Porgt Porgt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JZJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6JZJ FirstGlance]. <br>
-	</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=6jzj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jzj OCA], [http://pdbe.org/6jzj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jzj RCSB], [http://www.ebi.ac.uk/pdbsum/6jzj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jzj ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fimA (type II) ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1030843 PORGT])</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=6jzj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jzj OCA], [http://pdbe.org/6jzj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jzj RCSB], [http://www.ebi.ac.uk/pdbsum/6jzj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jzj ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacterial adhesion is a general strategy for host-microbe and microbe-microbe interactions. Adhesive pili are essential for colonization, biofilm formation, virulence and pathogenesis of many environmental and pathogenic bacteria(1,2). Members of the class Bacteroidia have unique type V pili, assembled by protease-mediated polymerization(3). Porphyromonas gingivalis is the main contributor to periodontal disease and its type V pili are a key factor for its virulence(4). However, the structure of the polymerized pilus and its assembly mechanism are unknown. Here we show structures of polymerized and monomeric states of FimA stalk pilin from P. gingivalis, determined by cryo-electron microscopy and crystallography. The atomic model of assembled FimA shows that the C-terminal strand of a donor subunit is inserted into a groove in the beta-sheet of an acceptor subunit after N-terminal cleavage by the protease RgpB. The C terminus of the donor strand is essential for polymerization. We propose that type V pili assemble via a sequential polar assembly mechanism at the cell surface, involving protease-mediated strand exchange, employed by various Gram-negative species belonging to the class Bacteroidia. Our results reveal functional surfaces related to pathogenic properties of polymerized FimA. These insights may facilitate development of antibacterial drugs.
		+
		+	Structure of polymerized type V pilin reveals assembly mechanism involving protease-mediated strand exchange.,Shibata S, Shoji M, Okada K, Matsunami H, Matthews MM, Imada K, Nakayama K, Wolf M Nat Microbiol. 2020 Apr 13. pii: 10.1038/s41564-020-0705-1. doi:, 10.1038/s41564-020-0705-1. PMID:32284566<ref>PMID:32284566</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6jzj" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Imada K]]	+	[[Category: Porgt]]
-	[[Category: Nakayam K]]	+	[[Category: Imada, K]]
-	[[Category: Okada K]]	+	[[Category: Nakayam, K]]
-	[[Category: Shoji M]]	+	[[Category: Okada, K]]
		+	[[Category: Shoji, M]]
		+	[[Category: Cell adhesion]]
		+	[[Category: Major fimbrial subunit protein]]
		+	[[Category: Type v pili]]

OCA at 06:51, 15 April 2020

OCA — Wed, 15 Apr 2020 06:51:19 GMT

←Older revision		Revision as of 06:51, 15 April 2020
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-	'''Unreleased structure'''

-	~~The entry 6jzj is ON HOLD until Paper Publication~~	+	==Structure of FimA type-2 (FimA2) prepilin of the type V major fimbrium==
-		+	<StructureSection load='6jzj' size='340' side='right'caption='[[6jzj]]' scene=''>
-	~~Authors: Okada, K., Shoji, M., Nakayam, K., Imada, K.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JZJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6JZJ FirstGlance]. <br>
-	~~Description:~~ Structure of FimA type-2 (FimA2) prepilin of the type V major fimbrium	+	</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=6jzj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jzj OCA], [http://pdbe.org/6jzj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jzj RCSB], [http://www.ebi.ac.uk/pdbsum/6jzj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jzj ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Okada~~, K]]	+	__TOC__
-	[[Category: ~~Shoji, M~~]]	+	</StructureSection>
-	[[Category: Imada, K]]	+	[[Category: Large Structures]]
-	[[Category: Nakayam, K]]	+	[[Category: Imada K]]
		+	[[Category: Nakayam K]]
		+	[[Category: Okada K]]
		+	[[Category: Shoji M]]

OCA at 06:28, 2 October 2019

OCA — Wed, 02 Oct 2019 06:28:58 GMT

←Older revision		Revision as of 06:28, 2 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Okada, K., Shoji, M., Nakayam, K., Imada, K.		Authors: Okada, K., Shoji, M., Nakayam, K., Imada, K.

-	Description: Structure of FimA type-1 (~~FimA1~~) prepilin of the type V major fimbrium	+	Description: Structure of FimA type-2 (FimA2) prepilin of the type V major fimbrium
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Okada, K]]		[[Category: Okada, K]]

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

OCA — Fri, 10 May 2019 07:40:46 GMT

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

←Older revision

Revision as of 07:40, 10 May 2019

OCA: New page: '''Unreleased structure''' The entry 6jzj is ON HOLD Authors: Okada, K., Shoji, M., Nakayam, K., Imada, K. Description: Structure of FimA type-1 (FimA1) prepilin of the type V major fi...

OCA — Fri, 10 May 2019 07:40:43 GMT

New page: '''Unreleased structure''' The entry 6jzj is ON HOLD Authors: Okada, K., Shoji, M., Nakayam, K., Imada, K. Description: Structure of FimA type-1 (FimA1) prepilin of the type V major fi...

New page

'''Unreleased structure'''

The entry 6jzj is ON HOLD

Authors: Okada, K., Shoji, M., Nakayam, K., Imada, K.

Description: Structure of FimA type-1 (FimA1) prepilin of the type V major fimbrium
[[Category: Unreleased Structures]]
[[Category: Okada, K]]
[[Category: Shoji, M]]
[[Category: Imada, K]]
[[Category: Nakayam, K]]