6r9n - Revision history

OCA at 11:06, 30 March 2022

OCA — Wed, 30 Mar 2022 11:06:04 GMT

←Older revision		Revision as of 11:06, 30 March 2022
Line 3:		Line 3:
	<StructureSection load='6r9n' size='340' side='right'caption='[[6r9n]], [[Resolution\|resolution]] 2.07Å' scene=''>		<StructureSection load='6r9n' size='340' side='right'caption='[[6r9n]], [[Resolution\|resolution]] 2.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6r9n]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Treponema_denticola_atcc_35404 Treponema denticola atcc 35404]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6R9N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6R9N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6r9n]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Treponema_denticola_atcc_35404 Treponema denticola atcc 35404]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6R9N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6R9N FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HMPREF9721_01162 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=999430 Treponema denticola ATCC 35404])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HMPREF9721_01162 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=999430 Treponema denticola ATCC 35404])</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=6r9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6r9n OCA], [~~http~~://pdbe.org/6r9n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6r9n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6r9n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6r9n 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=6r9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6r9n OCA], [https://pdbe.org/6r9n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6r9n RCSB], [https://www.ebi.ac.uk/pdbsum/6r9n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6r9n ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:46, 17 July 2019

OCA — Wed, 17 Jul 2019 12:46:40 GMT

←Older revision		Revision as of 12:46, 17 July 2019
Line 3:		Line 3:
	<StructureSection load='6r9n' size='340' side='right'caption='[[6r9n]], [[Resolution\|resolution]] 2.07Å' scene=''>		<StructureSection load='6r9n' size='340' side='right'caption='[[6r9n]], [[Resolution\|resolution]] 2.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6r9n]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6R9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6R9N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6r9n]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Treponema_denticola_atcc_35404 Treponema denticola atcc 35404]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6R9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6R9N FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HMPREF9721_01162 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=999430 Treponema denticola ATCC 35404])</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=6r9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6r9n OCA], [http://pdbe.org/6r9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6r9n RCSB], [http://www.ebi.ac.uk/pdbsum/6r9n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6r9n 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=6r9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6r9n OCA], [http://pdbe.org/6r9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6r9n RCSB], [http://www.ebi.ac.uk/pdbsum/6r9n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6r9n ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Many bacteria contain cytoplasmic chemoreceptors that lack sensor domains. Here, we demonstrate that such cytoplasmic receptors found in 8 different bacterial and archaeal phyla genetically couple to metalloproteins related to beta-lactamases and nitric oxide reductases. We show that this oxygen-binding di-iron protein (ODP) acts as a sensor for chemotactic responses to both iron and oxygen in the human pathogen Treponema denticola (Td). The ODP di-iron site binds oxygen at high affinity to reversibly form an unusually stable mu-peroxo adduct. Crystal structures of ODP from Td and the thermophile Thermotoga maritima (Tm) in the Fe[III]2-O2 (2-), Zn[II], and apo states display differences in subunit association, conformation, and metal coordination that indicate potential mechanisms for sensing. In reconstituted systems, iron-peroxo ODP destabilizes the phosphorylated form of the receptor-coupled histidine kinase CheA, thereby providing a biochemical link between oxygen sensing and chemotaxis in diverse prokaryotes, including anaerobes of ancient origin.
		+
		+	A di-iron protein recruited as an Fe[II] and oxygen sensor for bacterial chemotaxis functions by stabilizing an iron-peroxy species.,Muok AR, Deng Y, Gumerov VM, Chong JE, DeRosa JR, Kurniyati K, Coleman RE, Lancaster KM, Li C, Zhulin IB, Crane BR Proc Natl Acad Sci U S A. 2019 Jul 3. pii: 1904234116. doi:, 10.1073/pnas.1904234116. PMID:31270241<ref>PMID:31270241</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6r9n" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Treponema denticola atcc 35404]]
	[[Category: Crane, B R]]		[[Category: Crane, B R]]
	[[Category: Muok, A R]]		[[Category: Muok, A R]]

OCA at 06:17, 19 June 2019

OCA — Wed, 19 Jun 2019 06:17:17 GMT

←Older revision		Revision as of 06:17, 19 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6r9n is ~~ON HOLD until Paper Publication~~	+	==Peroxy diiron species of chemotaxis sensor ODP==
-		+	<StructureSection load='6r9n' size='340' side='right'caption='[[6r9n]], [[Resolution\|resolution]] 2.07Å' scene=''>
-	~~Authors~~: ~~Muok~~, A.R., ~~Crane~~, B.R.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6r9n]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6R9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6R9N FirstGlance]. <br>
-	~~Description: Peroxy diiron species of chemotaxis sensor ODP~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene></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=6r9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6r9n OCA], [http://pdbe.org/6r9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6r9n RCSB], [http://www.ebi.ac.uk/pdbsum/6r9n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6r9n ProSAT]</span></td></tr>
-	[[Category: ~~Muok~~, A.R]]	+	</table>
-	[[Category: ~~Crane~~, B.R]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Crane, B R]]
		+	[[Category: Muok, A R]]
		+	[[Category: Chemotaxis sensor]]
		+	[[Category: Diiron-peroxo adduct]]
		+	[[Category: Phosphatase]]
		+	[[Category: Signaling protein]]

OCA: Protected "6r9n" [edit=sysop:move=sysop]

OCA — Wed, 10 Apr 2019 05:47:04 GMT

Protected "6r9n" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:47, 10 April 2019

OCA: New page: '''Unreleased structure''' The entry 6r9n is ON HOLD until Paper Publication Authors: Muok, A.R., Crane, B.R. Description: Peroxy diiron species of chemotaxis sensor ODP [[Category: Un...

OCA — Wed, 10 Apr 2019 05:47:02 GMT

New page: '''Unreleased structure''' The entry 6r9n is ON HOLD until Paper Publication Authors: Muok, A.R., Crane, B.R. Description: Peroxy diiron species of chemotaxis sensor ODP [[Category: Un...

New page

'''Unreleased structure'''

The entry 6r9n is ON HOLD until Paper Publication

Authors: Muok, A.R., Crane, B.R.

Description: Peroxy diiron species of chemotaxis sensor ODP
[[Category: Unreleased Structures]]
[[Category: Muok, A.R]]
[[Category: Crane, B.R]]