4yn9 - Revision history

OCA at 15:37, 8 November 2023

2023-11-08T15:37:21Z

←Older revision		Revision as of 15:37, 8 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4yn9]] is a 2 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=4YN9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YN9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4yn9]] is a 2 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=4YN9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YN9 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]] 2.45Å</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'>[https://proteopedia.org/fgij/fg.htm?mol=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [https://pdbe.org/4yn9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [https://www.ebi.ac.uk/pdbsum/4yn9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yn9 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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [https://pdbe.org/4yn9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [https://www.ebi.ac.uk/pdbsum/4yn9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yn9 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:21, 3 May 2023

2023-05-03T08:21:05Z

←Older revision		Revision as of 08:21, 3 May 2023
Line 3:		Line 3:
	<StructureSection load='4yn9' size='340' side='right'caption='[[4yn9]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='4yn9' size='340' side='right'caption='[[4yn9]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4yn9]] is a 2 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=4YN9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4YN9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4yn9]] is a 2 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=4YN9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YN9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~</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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yn7\|4yn7]], [[4yna\|4yna]]</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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [https://pdbe.org/4yn9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [https://www.ebi.ac.uk/pdbsum/4yn9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yn9 ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">yfiR, PA1121 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=208964 PSEAE])~~</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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [~~http~~://pdbe.org/4yn9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4yn9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4yn9 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9I4L4_PSEAE Q9I4L4_PSEAE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Pseae~~]]	+	[[Category: Pseudomonas aeruginosa PAO1]]
-	[[Category: Jiang, T]]	+	[[Category: Jiang T]]
-	[[Category: Xu, M]]	+	[[Category: Xu M]]
-	~~[[Category: C110s mutant]]~~	+
-	~~[[Category: Periplasmic repressor protein]]~~	+
-	~~[[Category: Transcription~~]]	+

OCA at 06:31, 12 June 2019

2019-06-12T06:31:16Z

←Older revision		Revision as of 06:31, 12 June 2019
Line 1:		Line 1:

	==YfiR mutant-C110S==		==YfiR mutant-C110S==
-	<StructureSection load='4yn9' size='340' side='right' caption='[[4yn9]], [[Resolution\|resolution]] 2.45Å' scene=''>	+	<StructureSection load='4yn9' size='340' side='right'caption='[[4yn9]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4yn9]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YN9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YN9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4yn9]] is a 2 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=4YN9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YN9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yn7\|4yn7]], [[4yna\|4yna]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yn7\|4yn7]], [[4yna\|4yna]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">yfiR, PA1121 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=208964 PSEAE])</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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [http://pdbe.org/4yn9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [http://www.ebi.ac.uk/pdbsum/4yn9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yn9 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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [http://pdbe.org/4yn9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [http://www.ebi.ac.uk/pdbsum/4yn9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yn9 ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Pseae]]
	[[Category: Jiang, T]]		[[Category: Jiang, T]]
	[[Category: Xu, M]]		[[Category: Xu, M]]

OCA at 09:51, 10 March 2017

2017-03-10T09:51:16Z

←Older revision		Revision as of 09:51, 10 March 2017
Line 1:		Line 1:
		+
	==YfiR mutant-C110S==		==YfiR mutant-C110S==
	<StructureSection load='4yn9' size='340' side='right' caption='[[4yn9]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='4yn9' size='340' side='right' caption='[[4yn9]], [[Resolution\|resolution]] 2.45Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yn7\|4yn7]], [[4yna\|4yna]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yn7\|4yn7]], [[4yna\|4yna]]</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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [http://www.ebi.ac.uk/pdbsum/4yn9 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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [http://pdbe.org/4yn9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [http://www.ebi.ac.uk/pdbsum/4yn9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yn9 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 4yn9" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:37, 22 April 2015

2015-04-22T12:37:40Z

←Older revision		Revision as of 12:37, 22 April 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==YfiR mutant-C110S==
		+	<StructureSection load='4yn9' size='340' side='right' caption='[[4yn9]], [[Resolution\|resolution]] 2.45Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4yn9]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YN9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YN9 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yn7\|4yn7]], [[4yna\|4yna]]</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=4yn9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yn9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4yn9 RCSB], [http://www.ebi.ac.uk/pdbsum/4yn9 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	YfiBNR is a recently identified c-di-GMP regulatory system involved in bacterial biofilm formation. The periplasmic protein YfiR inhibits the diguanylate cyclase activity of the inner membrane protein YfiN, whereas YfiB in the outer membrane can release this inhibition by sequestration of YfiR. In addition, this system may respond to anoxic conditions via YfiR, although the detailed mechanism is still unknown. Here we report crystal structures of Pseudomonas aeruginosa YfiR in the absence and presence of oxidative glutathione. Our structures reveal the overall folding of YfiR for the first time and demonstrate that YfiR exist as a dimer. Comparison of the two structures in different redox states revealed a broken/formation of one disulfide bond (Cys71-Cys110) and local conformational change around the other one (Cys145-Cys152). Mutagenesis studies indicated that Cys145-Cys152 plays an important role in maintaining the correct folding of YfiR.

-	~~The entry 4yn9 is ON HOLD~~	+	Crystal structures of YfiR from Pseudomonas aeruginosa in two redox states.,Yang X, Yang XA, Xu M, Zhou L, Fan Z, Jiang T Biochem Biophys Res Commun. 2015 Apr 4. pii: S0006-291X(15)00628-2. doi:, 10.1016/j.bbrc.2015.03.160. PMID:25849887<ref>PMID:25849887</ref>

-	~~Authors: Xu~~, M.~~, Jiang, T~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description:~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Jiang, T]]
	[[Category: Xu, M]]		[[Category: Xu, M]]
-	[[Category: ~~Jiang, T~~]]	+	[[Category: C110s mutant]]
		+	[[Category: Periplasmic repressor protein]]
		+	[[Category: Transcription]]

OCA: Protected "4yn9" [edit=sysop:move=sysop]

2015-03-18T10:53:56Z

Protected "4yn9" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:53, 18 March 2015

OCA: New page: '''Unreleased structure''' The entry 4yn9 is ON HOLD Authors: Xu, M., Jiang, T. Description: Category: Unreleased Structures Category: Xu, M Category: Jiang, T

2015-03-18T10:53:55Z

New page: '''Unreleased structure''' The entry 4yn9 is ON HOLD Authors: Xu, M., Jiang, T. Description: Category: Unreleased Structures Category: Xu, M Category: Jiang, T

New page

'''Unreleased structure'''

The entry 4yn9 is ON HOLD

Authors: Xu, M., Jiang, T.

Description:
[[Category: Unreleased Structures]]
[[Category: Xu, M]]
[[Category: Jiang, T]]