6u5k - Revision history

OCA at 09:28, 20 March 2024

OCA — Wed, 20 Mar 2024 09:28:35 GMT

←Older revision		Revision as of 09:28, 20 March 2024
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	<StructureSection load='6u5k' size='340' side='right'caption='[[6u5k]], [[Resolution\|resolution]] 3.50Å' scene=''>		<StructureSection load='6u5k' size='340' side='right'caption='[[6u5k]], [[Resolution\|resolution]] 3.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6u5k]] is a 54 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pseae Pseae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U5K OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6U5K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6u5k]] is a 54 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U5K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6U5K FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[6pyt\|6pyt]]~~, [[~~6u5b~~\|~~6u5b]], [[6u5f\|6u5f]], [[6u5h\|6u5h]], [[6u5j\|6u5j~~]]</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]] 3.5Å</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=6u5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u5k OCA], [~~http~~://pdbe.org/6u5k PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6u5k RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6u5k PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6u5k 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=6u5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u5k OCA], [https://pdbe.org/6u5k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6u5k RCSB], [https://www.ebi.ac.uk/pdbsum/6u5k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6u5k ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/G3XD39_PSEAE G3XD39_PSEAE]
-	R-type bacteriocins are minimal contractile nanomachines that hold promise as precision antibiotics(1-4). Each bactericidal complex uses a collar to bridge a hollow tube with a contractile sheath loaded in a metastable state by a baseplate scaffold(1,2). Fine-tuning of such nucleic acid-free protein machines for precision medicine calls for an atomic description of the entire complex and contraction mechanism, which is not available from baseplate structures of the (DNA-containing) T4 bacteriophage(5). Here we report the atomic model of the complete R2 pyocin in its pre-contraction and post-contraction states, each containing 384 subunits of 11 unique atomic models of 10 gene products. Comparison of these structures suggests the following sequence of events during pyocin contraction: tail fibres trigger lateral dissociation of baseplate triplexes; the dissociation then initiates a cascade of events leading to sheath contraction; and this contraction converts chemical energy into mechanical force to drive the iron-tipped tube across the bacterial cell surface, killing the bacterium.	+
-		+
-	Action of a minimal contractile bactericidal nanomachine.,Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH Nature. 2020 Apr;580(7805):658-662. doi: 10.1038/~~s41586-020-2186-z. Epub 2020 Apr, 15. PMID:32350467<ref>PMID:32350467<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6u5k" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Pseae~~]]	+	[[Category: Pseudomonas aeruginosa PAO1]]
-	[[Category: Avaylon, J]]	+	[[Category: Avaylon J]]
-	[[Category: Browning, C]]	+	[[Category: Browning C]]
-	[[Category: Buth~~, S A~~]]	+	[[Category: Buth SA]]
-	[[Category: Ding, K]]	+	[[Category: Ding K]]
-	[[Category: Ge, P]]	+	[[Category: Ge P]]
-	[[Category: Leiman~~, P G~~]]	+	[[Category: Leiman PG]]
-	[[Category: Miller~~, J F~~]]	+	[[Category: Miller JF]]
-	[[Category: Plattner, M]]	+	[[Category: Plattner M]]
-	[[Category: Scholl, D]]	+	[[Category: Scholl D]]
-	[[Category: Shneider~~, M M~~]]	+	[[Category: Shneider MM]]
-	[[Category: Zhou~~, Z H]]~~	+	[[Category: Zhou ZH]]
-	~~[[Category: Antimicrobial protein]]~~	+
-	~~[[Category: Bacteriocin]]~~	+
-	~~[[Category: Pyocin~~]]	+

OCA at 05:58, 13 May 2020

OCA — Wed, 13 May 2020 05:58:41 GMT

←Older revision		Revision as of 05:58, 13 May 2020
Line 1:		Line 1:

	==CryoEM Structure of Pyocin R2 - postcontracted - baseplate==		==CryoEM Structure of Pyocin R2 - postcontracted - baseplate==
-	<StructureSection load='6u5k' size='340' side='right'caption='[[6u5k]]' scene=''>	+	<StructureSection load='6u5k' size='340' side='right'caption='[[6u5k]], [[Resolution\|resolution]] 3.50Å' 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=6U5K OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6U5K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6u5k]] is a 54 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U5K OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6U5K 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=6u5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u5k OCA], [http://pdbe.org/6u5k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u5k RCSB], [http://www.ebi.ac.uk/pdbsum/6u5k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u5k ProSAT]</span></td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6pyt\|6pyt]], [[6u5b\|6u5b]], [[6u5f\|6u5f]], [[6u5h\|6u5h]], [[6u5j\|6u5j]]</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=6u5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u5k OCA], [http://pdbe.org/6u5k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u5k RCSB], [http://www.ebi.ac.uk/pdbsum/6u5k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u5k ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	R-type bacteriocins are minimal contractile nanomachines that hold promise as precision antibiotics(1-4). Each bactericidal complex uses a collar to bridge a hollow tube with a contractile sheath loaded in a metastable state by a baseplate scaffold(1,2). Fine-tuning of such nucleic acid-free protein machines for precision medicine calls for an atomic description of the entire complex and contraction mechanism, which is not available from baseplate structures of the (DNA-containing) T4 bacteriophage(5). Here we report the atomic model of the complete R2 pyocin in its pre-contraction and post-contraction states, each containing 384 subunits of 11 unique atomic models of 10 gene products. Comparison of these structures suggests the following sequence of events during pyocin contraction: tail fibres trigger lateral dissociation of baseplate triplexes; the dissociation then initiates a cascade of events leading to sheath contraction; and this contraction converts chemical energy into mechanical force to drive the iron-tipped tube across the bacterial cell surface, killing the bacterium.
		+
		+	Action of a minimal contractile bactericidal nanomachine.,Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH Nature. 2020 Apr;580(7805):658-662. doi: 10.1038/s41586-020-2186-z. Epub 2020 Apr, 15. PMID:32350467<ref>PMID:32350467</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6u5k" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Avaylon J]]	+	[[Category: Pseae]]
-	[[Category: Browning C]]	+	[[Category: Avaylon, J]]
-	[[Category: Buth SA]]	+	[[Category: Browning, C]]
-	[[Category: Ding K]]	+	[[Category: Buth, S A]]
-	[[Category: Ge P]]	+	[[Category: Ding, K]]
-	[[Category: Leiman PG]]	+	[[Category: Ge, P]]
-	[[Category: Miller JF]]	+	[[Category: Leiman, P G]]
-	[[Category: Plattner M]]	+	[[Category: Miller, J F]]
-	[[Category: Scholl D]]	+	[[Category: Plattner, M]]
-	[[Category: Shneider MM]]	+	[[Category: Scholl, D]]
-	[[Category: Zhou ZH]]	+	[[Category: Shneider, M M]]
		+	[[Category: Zhou, Z H]]
		+	[[Category: Antimicrobial protein]]
		+	[[Category: Bacteriocin]]
		+	[[Category: Pyocin]]

OCA at 07:00, 15 April 2020

OCA — Wed, 15 Apr 2020 07:00:41 GMT

←Older revision		Revision as of 07:00, 15 April 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6u5k is ~~ON HOLD until Paper Publication~~	+	==CryoEM Structure of Pyocin R2 - postcontracted - baseplate==
-		+	<StructureSection load='6u5k' size='340' side='right'caption='[[6u5k]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U5K OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6U5K FirstGlance]. <br>
-	~~Description~~:	+	</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=6u5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u5k OCA], [http://pdbe.org/6u5k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u5k RCSB], [http://www.ebi.ac.uk/pdbsum/6u5k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u5k ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Avaylon J]]
		+	[[Category: Browning C]]
		+	[[Category: Buth SA]]
		+	[[Category: Ding K]]
		+	[[Category: Ge P]]
		+	[[Category: Leiman PG]]
		+	[[Category: Miller JF]]
		+	[[Category: Plattner M]]
		+	[[Category: Scholl D]]
		+	[[Category: Shneider MM]]
		+	[[Category: Zhou ZH]]

OCA: Protected "6u5k" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 08:14:49 GMT

Protected "6u5k" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:14, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6u5k is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 08:14:47 GMT

New page: '''Unreleased structure''' The entry 6u5k is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6u5k is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]