4ntq - Revision history

OCA at 08:39, 18 January 2023

OCA — Wed, 18 Jan 2023 08:39:30 GMT

←Older revision		Revision as of 08:39, 18 January 2023
Line 1:		Line 1:

	==CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae==		==CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae==
-	<StructureSection load='4ntq' size='340' side='right' caption='[[4ntq]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='4ntq' size='340' side='right'caption='[[4ntq]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ntq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Entcc Entcc~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NTQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4NTQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ntq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacter_cloacae_subsp._cloacae_ATCC_13047 Enterobacter cloacae subsp. cloacae ATCC 13047]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NTQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NTQ FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdiA, ECL_04451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=716541 ENTCC])~~</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=4ntq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ntq OCA], [https://pdbe.org/4ntq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ntq RCSB], [https://www.ebi.ac.uk/pdbsum/4ntq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ntq 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=4ntq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ntq OCA], [~~http~~://pdbe.org/4ntq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ntq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ntq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ntq ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CDIA_ENTCC CDIA_ENTCC] Toxic component of a toxin-immunity protein module, which functions as a cellular contact-dependent growth inhibition (CDI) system. CDI modules allow bacteria to communicate with and inhibit the growth of closely related neighboring bacteria in a contact-dependent fashion; upon forced induction decreases E.cloacae target cell counts about 20-fold, about 100-fold in E.coli. Intracellular expression of CdiA-CT (residues 3087-3321) inhibits E.coli cell growth when induced, but coexpression with its cognate immunity protein CdiI allows cell growth. Cleaves 16S rRNA in vivo and in vitro between adenine 1493 and guanosine 1494 of E.coli 16S rRNA. Inhibition of 16S rRNA cleavage is specific to the cognate immunity protein, non-cognate CdiI from E.chrysanthemi strain EC16 does not inhibit this protein (PubMed:24657090). Purified CdiA-CT inhibits E.coli cell growth when added to cultures but not when added as a complex with cognate CdiI, suggesting cognate CdiI prevents import into the target cell. CdiA-CT (without CdiI) is probably imported in an F-pilus-mediated fashion, although it is not clear if this is physiologically significant (PubMed:24889811). Gains access to the cytoplasm of target cells by using integral inner membrane protein FtsH (PubMed:26305955).<ref>PMID:24657090</ref> <ref>PMID:24889811</ref> <ref>PMID:26305955</ref> The CdiA protein is thought to be exported from the cell through the central lumen of CdiB, the other half of its two-partner system (TPS). The TPS domain probably remains associated with CdiB while the FHA-1 domain forms an extended filament with the receptor-binding domain (RBD) at its extremity; in the secretion arrested state the C-terminus of the RBD and YP domains form a hairpin-like structure as the FHA-2, PT and CT domains are periplasmic. The YP domain is probably responsible for this arrest at the point where it re-enters the host cell periplasm. Upon binding to a target cell outer membrane receptor a signal is transmitted to activate secretion. The filament elongates slightly, the rest of CdiA is secreted and the FHA-2 domain becomes stably associated with the target cell's outer membrane where it facilitates entry of the toxic CT domain into the target cell periplasm. From there the toxic CT domain is cleaved and gains access to the target cell cytoplasm via an inner membrane protein (FtsH for this CDI).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Entcc~~]]	+	[[Category: Enterobacter cloacae subsp. cloacae ATCC 13047]]
-	[[Category: ~~Goulding, C W~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Morse, R P~~]]	+	[[Category: Goulding CW]]
-	[[Category: ~~Immunity]]~~	+	[[Category: Morse RP]]
-	~~[[Category: Rnase]]~~	+
-	~~[[Category: Toxin~~]]	+

OCA at 08:06, 11 August 2016

OCA — Thu, 11 Aug 2016 08:06:13 GMT

←Older revision		Revision as of 08:06, 11 August 2016
Line 1:		Line 1:
		+
	==CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae==		==CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae==
	<StructureSection load='4ntq' size='340' side='right' caption='[[4ntq]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='4ntq' size='340' side='right' caption='[[4ntq]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdiA, ECL_04451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=716541 ENTCC])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdiA, ECL_04451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=716541 ENTCC])</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=4ntq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ntq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ntq RCSB], [http://www.ebi.ac.uk/pdbsum/4ntq PDBsum]</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=4ntq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ntq OCA], [http://pdbe.org/4ntq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ntq RCSB], [http://www.ebi.ac.uk/pdbsum/4ntq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ntq ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4ntq" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 09:09, 5 January 2015

OCA — Mon, 05 Jan 2015 09:09:33 GMT

←Older revision		Revision as of 09:09, 5 January 2015
Line 2:		Line 2:
	<StructureSection load='4ntq' size='340' side='right' caption='[[4ntq]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='4ntq' size='340' side='right' caption='[[4ntq]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ntq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Entcc Entcc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NTQ OCA]. <br>	+	<table><tr><td colspan='2'>[[4ntq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Entcc Entcc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NTQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NTQ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdiA, ECL_04451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=716541 ENTCC])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdiA, ECL_04451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=716541 ENTCC])</td></tr>
-	<tr~~><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class~~='~~plainlinks~~'~~>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=4ntq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ntq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ntq RCSB], [http://www.ebi.ac.uk/pdbsum/4ntq PDBsum]</span></td></tr>
-	~~<tr~~><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ntq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ntq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ntq RCSB], [http://www.ebi.ac.uk/pdbsum/4ntq PDBsum]</span></td></tr>	+	</table>
-	<table>	+
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 13:
	CdiA from Enterobacter cloacae Delivers a Toxic Ribosomal RNase into Target Bacteria.,Beck CM, Morse RP, Cunningham DA, Iniguez A, Low DA, Goulding CW, Hayes CS Structure. 2014 May 6;22(5):707-18. doi: 10.1016/j.str.2014.02.012. Epub 2014 Mar, 20. PMID:24657090<ref>PMID:24657090</ref>		CdiA from Enterobacter cloacae Delivers a Toxic Ribosomal RNase into Target Bacteria.,Beck CM, Morse RP, Cunningham DA, Iniguez A, Low DA, Goulding CW, Hayes CS Structure. 2014 May 6;22(5):707-18. doi: 10.1016/j.str.2014.02.012. Epub 2014 Mar, 20. PMID:24657090<ref>PMID:24657090</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, a database of the U.S. National Library of Medicine.<br>	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
	== References ==		== References ==
Line 21:		Line 20:
	</StructureSection>		</StructureSection>
	[[Category: Entcc]]		[[Category: Entcc]]
-	[[Category: Goulding, C W.]]	+	[[Category: Goulding, C W]]
-	[[Category: Morse, R P.]]	+	[[Category: Morse, R P]]
	[[Category: Immunity]]		[[Category: Immunity]]
	[[Category: Rnase]]		[[Category: Rnase]]
	[[Category: Toxin]]		[[Category: Toxin]]

OCA at 06:38, 14 May 2014

OCA — Wed, 14 May 2014 06:38:22 GMT

←Older revision		Revision as of 06:38, 14 May 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4ntq\| PDB=4ntq \| SCENE= }}~~	+	==CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae==
-	===CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae===	+	<StructureSection load='4ntq' size='340' side='right' caption='[[4ntq]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4ntq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Entcc Entcc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NTQ OCA]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdiA, ECL_04451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=716541 ENTCC])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ntq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ntq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ntq RCSB], [http://www.ebi.ac.uk/pdbsum/4ntq PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Contact-dependent growth inhibition (CDI) is one mechanism of inter-bacterial competition. CDI(+) cells export large CdiA effector proteins, which carry a variety of C-terminal toxin domains (CdiA-CT). CdiA-CT toxins are specifically neutralized by cognate CdiI immunity proteins to protect toxin-producing cells from autoinhibition. Here, we use structure determination to elucidate the activity of a CDI toxin from Enterobacter cloacae (ECL). The structure of CdiA-CT(ECL) resembles the C-terminal nuclease domain of colicin E3, which cleaves 16S ribosomal RNA to disrupt protein synthesis. In accord with this structural homology, we show that CdiA-CT(ECL) uses the same nuclease activity to inhibit bacterial growth. Surprisingly, although colicin E3 and CdiA(ECL) carry equivalent toxin domains, the corresponding immunity proteins are unrelated in sequence, structure, and toxin-binding site. Together, these findings reveal unexpected diversity among 16S rRNases and suggest that these nucleases are robust and versatile payloads for a variety of toxin-delivery platforms.

-	~~==About this Structure==~~	+	CdiA from Enterobacter cloacae Delivers a Toxic Ribosomal RNase into Target Bacteria.,Beck CM, Morse RP, Cunningham DA, Iniguez A, Low DA, Goulding CW, Hayes CS Structure. 2014 May 6;22(5):707-18. doi: 10.1016/j.str.2014.02.012. Epub 2014 Mar, 20. PMID:24657090<ref>PMID:24657090</ref>
-	~~[[4ntq]] is~~ a ~~2 chain structure~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin~~/~~ocashort?id~~=~~4NTQ OCA~~].	+
		+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Entcc]]
	[[Category: Goulding, C W.]]		[[Category: Goulding, C W.]]
	[[Category: Morse, R P.]]		[[Category: Morse, R P.]]

OCA at 09:38, 26 March 2014

OCA — Wed, 26 Mar 2014 09:38:14 GMT

←Older revision		Revision as of 09:38, 26 March 2014
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4ntq\| PDB=4ntq \| SCENE= }}
		+	===CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae===

-	~~The entry~~ 4ntq is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[4ntq]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NTQ OCA].
-	~~Authors~~: ~~Morse, R~~.P., Goulding, C.W.	+	[[Category: Goulding, C W.]]
-		+	[[Category: Morse, R P.]]
-	~~Description~~: ~~CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae~~	+	[[Category: Immunity]]
		+	[[Category: Rnase]]
		+	[[Category: Toxin]]

OCA at 04:48, 13 February 2014

OCA — Thu, 13 Feb 2014 04:48:40 GMT

←Older revision		Revision as of 04:48, 13 February 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4ntq is ON HOLD	+	The entry 4ntq is ON HOLD until Paper Publication

	Authors: Morse, R.P., Goulding, C.W.		Authors: Morse, R.P., Goulding, C.W.

	Description: CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae		Description: CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae

OCA: Protected "4ntq" [edit=sysop:move=sysop]

OCA — Wed, 11 Dec 2013 13:07:57 GMT

Protected "4ntq" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:07, 11 December 2013

OCA: New page: '''Unreleased structure''' The entry 4ntq is ON HOLD Authors: Morse, R.P., Goulding, C.W. Description: CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae

OCA — Wed, 11 Dec 2013 13:07:56 GMT

New page: '''Unreleased structure''' The entry 4ntq is ON HOLD Authors: Morse, R.P., Goulding, C.W. Description: CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae

New page

'''Unreleased structure'''

The entry 4ntq is ON HOLD

Authors: Morse, R.P., Goulding, C.W.

Description: CdiA-CT/CdiI toxin and immunity complex from Enterobacter cloacae