4kg1 - Revision history

OCA: Redirecting to 5h5o

OCA — Wed, 24 May 2017 13:33:28 GMT

Redirecting to 5h5o

←Older revision		Revision as of 13:33, 24 May 2017
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-		+	#REDIRECT [[5h5o]] This PDB entry is obsolete and replaced by 5h5o
-	~~==cGMP-responsive diguanylate cyclase==~~	+
-	~~<StructureSection load='4kg1' size='340' side='right' caption='~~[[~~4kg1]], [[Resolution\|resolution]] 2.42Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[4kg1~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Xancb Xancb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KG1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KG1 FirstGlance]. <br>	+
-	~~</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCG:CYCLIC+GUANOSINE+MONOPHOSPHATE'>PCG</scene></td></tr>~~	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">xcc-b100_0261 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=509169 XANCB])</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=4kg1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kg1 OCA], [http://pdbe.org/4kg1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kg1 RCSB], [http://www.ebi.ac.uk/pdbsum/4kg1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kg1 ProSAT]</span></td></tr>	+
-	~~</table>~~	+
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Cyclic guanosine 3',5'-monophosphate (cyclic GMP) is a second messenger whose role in bacterial signalling is poorly understood. A genetic screen in the plant pathogen Xanthomonas campestris (Xcc) identified that XC_0250, which encodes a protein with a class III nucleotidyl cyclase domain, is required for cyclic GMP synthesis. Purified XC_0250 was active in cyclic GMP synthesis in vitro. The linked gene XC_0249 encodes a protein with a cyclic mononucleotide-binding (cNMP) domain and ~~a GGDEF diguanylate cyclase domain. The activity of XC_0249 in cyclic di-GMP synthesis was enhanced~~ by addition of cyclic GMP. The isolated cNMP domain of XC_0249 bound cyclic GMP and a structure-function analysis, directed by determination of the crystal structure of the holo-complex, demonstrated the site of cyclic GMP binding that modulates cyclic di-GMP synthesis. Mutation of either XC_0250 or XC_0249 led to a reduced virulence to plants and reduced biofilm formation in vitro. These findings describe a regulatory pathway in which cyclic GMP regulates virulence and biofilm formation through interaction with a novel effector that directly links cyclic GMP and cyclic di-GMP signalling.	+
-		+
-	A cyclic GMP-dependent signalling pathway regulates bacterial phytopathogenesis.,An SQ, Chin KH, Febrer M, McCarthy Y, Yang JG, Liu CL, Swarbreck D, Rogers J, Maxwell Dow J, Chou SH, Ryan RP EMBO J. 2013 Sep 11;32(18):2430-8. doi: 10.1038/emboj.2013.165. Epub 2013 Jul 23. PMID:23881098<ref>PMID:23881098</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 4kg1" style="background-color:#fffaf0;"></div>~~	+
-		+
-	~~==See Also==~~	+
-	*[[Diguanylate cyclase\|Diguanylate cyclase]]	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: Xancb]]~~	+
-	~~[[Category: Chin, K H]]~~	+
-	~~[[Category: Cgmp-responsive diguanylate cyclase]]~~	+
-	~~[[Category: Lyase]]~~	+

OCA at 10:30, 4 August 2016

OCA — Thu, 04 Aug 2016 10:30:18 GMT

←Older revision		Revision as of 10:30, 4 August 2016
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		+
	==cGMP-responsive diguanylate cyclase==		==cGMP-responsive diguanylate cyclase==
	<StructureSection load='4kg1' size='340' side='right' caption='[[4kg1]], [[Resolution\|resolution]] 2.42Å' scene=''>		<StructureSection load='4kg1' size='340' side='right' caption='[[4kg1]], [[Resolution\|resolution]] 2.42Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCG:CYCLIC+GUANOSINE+MONOPHOSPHATE'>PCG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCG:CYCLIC+GUANOSINE+MONOPHOSPHATE'>PCG</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">xcc-b100_0261 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=509169 XANCB])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">xcc-b100_0261 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=509169 XANCB])</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=4kg1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kg1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kg1 RCSB], [http://www.ebi.ac.uk/pdbsum/4kg1 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=4kg1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kg1 OCA], [http://pdbe.org/4kg1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kg1 RCSB], [http://www.ebi.ac.uk/pdbsum/4kg1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kg1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4kg1" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Diguanylate cyclase\|Diguanylate cyclase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:14, 21 December 2014

OCA — Sun, 21 Dec 2014 17:14:36 GMT

←Older revision		Revision as of 17:14, 21 December 2014
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-	~~{{STRUCTURE_4kg1~~\| ~~PDB~~=4kg1 \| ~~SCENE~~= }}	+	==cGMP-responsive diguanylate cyclase==
-	===~~cGMP~~-~~responsive diguanylate cyclase~~===	+	<StructureSection load='4kg1' size='340' side='right' caption='[[4kg1]], [[Resolution\|resolution]] 2.42Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23881098}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4kg1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Xancb Xancb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KG1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KG1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCG:CYCLIC+GUANOSINE+MONOPHOSPHATE'>PCG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">xcc-b100_0261 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=509169 XANCB])</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=4kg1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kg1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kg1 RCSB], [http://www.ebi.ac.uk/pdbsum/4kg1 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cyclic guanosine 3',5'-monophosphate (cyclic GMP) is a second messenger whose role in bacterial signalling is poorly understood. A genetic screen in the plant pathogen Xanthomonas campestris (Xcc) identified that XC_0250, which encodes a protein with a class III nucleotidyl cyclase domain, is required for cyclic GMP synthesis. Purified XC_0250 was active in cyclic GMP synthesis in vitro. The linked gene XC_0249 encodes a protein with a cyclic mononucleotide-binding (cNMP) domain and a GGDEF diguanylate cyclase domain. The activity of XC_0249 in cyclic di-GMP synthesis was enhanced by addition of cyclic GMP. The isolated cNMP domain of XC_0249 bound cyclic GMP and a structure-function analysis, directed by determination of the crystal structure of the holo-complex, demonstrated the site of cyclic GMP binding that modulates cyclic di-GMP synthesis. Mutation of either XC_0250 or XC_0249 led to a reduced virulence to plants and reduced biofilm formation in vitro. These findings describe a regulatory pathway in which cyclic GMP regulates virulence and biofilm formation through interaction with a novel effector that directly links cyclic GMP and cyclic di-GMP signalling.

-	~~==About this Structure==~~	+	A cyclic GMP-dependent signalling pathway regulates bacterial phytopathogenesis.,An SQ, Chin KH, Febrer M, McCarthy Y, Yang JG, Liu CL, Swarbreck D, Rogers J, Maxwell Dow J, Chou SH, Ryan RP EMBO J. 2013 Sep 11;32(18):2430-8. doi: 10.1038/emboj.2013.165. Epub 2013 Jul 23. PMID:23881098<ref>PMID:23881098</ref>
-	~~[[4kg1]] is a 2 chain structure~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.~~il/oca-bin/ocashort?id=4KG1 OCA]~~.	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023881098</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
-	[[Category: Chin, K H.]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Xancb]]
		+	[[Category: Chin, K H]]
	[[Category: Cgmp-responsive diguanylate cyclase]]		[[Category: Cgmp-responsive diguanylate cyclase]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 10:24, 27 November 2013

OCA — Wed, 27 Nov 2013 10:24:07 GMT

←Older revision		Revision as of 10:24, 27 November 2013
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-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4kg1\| PDB=4kg1 \| SCENE= }}
		+	===cGMP-responsive diguanylate cyclase===
		+	{{ABSTRACT_PUBMED_23881098}}

-	~~The entry~~ 4kg1 is ~~ON HOLD~~	+	==About this Structure==
		+	[[4kg1]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KG1 OCA].

-	~~Authors~~: Chin, K.-H.	+	==Reference==
-		+	<ref group="xtra">PMID:023881098</ref><references group="xtra"/><references/>
-	~~Description~~: ~~cGMP~~-responsive diguanylate cyclase	+	[[Category: Chin, K H.]]
		+	[[Category: Cgmp-responsive diguanylate cyclase]]
		+	[[Category: Lyase]]

OCA at 11:37, 19 June 2013

OCA — Wed, 19 Jun 2013 11:37:04 GMT

←Older revision		Revision as of 11:37, 19 June 2013
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	The entry 4kg1 is ON HOLD		The entry 4kg1 is ON HOLD

-	Authors: ~~Ko-Hsin~~ Chin	+	Authors: Chin, K.-H.

	Description: cGMP-responsive diguanylate cyclase		Description: cGMP-responsive diguanylate cyclase

OCA: Protected "4kg1" [edit=sysop:move=sysop]

OCA — Wed, 08 May 2013 07:22:21 GMT

Protected "4kg1" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:22, 8 May 2013

OCA: New page: '''Unreleased structure''' The entry 4kg1 is ON HOLD Authors: Ko-Hsin Chin Description: cGMP-responsive diguanylate cyclase

OCA — Wed, 08 May 2013 07:22:19 GMT

New page: '''Unreleased structure''' The entry 4kg1 is ON HOLD Authors: Ko-Hsin Chin Description: cGMP-responsive diguanylate cyclase

New page

'''Unreleased structure'''

The entry 4kg1 is ON HOLD

Authors: Ko-Hsin Chin

Description: cGMP-responsive diguanylate cyclase