2nud - Revision history

OCA at 10:21, 30 August 2023

OCA — Wed, 30 Aug 2023 10:21:09 GMT

←Older revision		Revision as of 10:21, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2nud' size='340' side='right'caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2nud' size='340' side='right'caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Psesg Psesg~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NUD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana] and [https://en.wikipedia.org/wiki/Pseudomonas_savastanoi_pv._glycinea Pseudomonas savastanoi pv. glycinea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NUD FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>~~, ~~<scene name='pdbligand=TRS:~~2~~-AMINO-2-HYDROXYMETHYL-PROPANE-1,~~3~~-DIOL'>TRS</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]] 2.3Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1nh1\|1nh1]], [[2nun\|2nun]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">avrB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 PSESG])~~</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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [https://pdbe.org/2nud PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [https://www.ebi.ac.uk/pdbsum/2nud PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nud 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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [https://pdbe.org/2nud PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [https://www.ebi.ac.uk/pdbsum/2nud PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nud ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~RIN4_ARATH RIN4_ARATH~~]] Essential regulator of plant defense, which plays a central role in resistance in case of infection by a pathogen. It is a common target for both type III avirulence proteins from P.syringae (AvrB, AvrRpm1 and AvrRpt2) and for the plant Resistance (R) proteins RPM1 and RPS2. In strains carrying the appropriate R gene for avirulence proteins of the pathogen, its association with avirulence proteins triggers a defense system including the hypersensitive response, which limits the spread of disease. In contrast, in plants lacking appropriate R genes, its association with avirulence proteins of the pathogen impairs the defense system and leads to the pathogen multiplication.<ref>PMID:11955429</ref> <ref>PMID:12581526</ref> <ref>PMID:12581527</ref>	+	[https://www.uniprot.org/uniprot/AVRB_PSESG AVRB_PSESG]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Psesg~~]]	+	[[Category: Pseudomonas savastanoi pv. glycinea]]
-	[[Category: Dangl~~, J L~~]]	+	[[Category: Dangl JL]]
-	[[Category: Desveaux, D]]	+	[[Category: Desveaux D]]
-	[[Category: McNulty, B]]	+	[[Category: McNulty B]]
-	[[Category: Singer~~, A U~~]]	+	[[Category: Singer AU]]
-	[[Category: Sondek, J]]	+	[[Category: Sondek J]]
-	[[Category: Wu~~, A J]]~~	+	[[Category: Wu AJ]]
-	~~[[Category: Avrb rin4 high-affinity crystal structure]]~~	+
-	~~[[Category: Toxin-protein binding complex~~]]	+

OCA at 15:51, 8 June 2021

OCA — Tue, 08 Jun 2021 15:51:17 GMT

←Older revision		Revision as of 15:51, 8 June 2021
Line 1:		Line 1:

	==The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide==		==The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide==
-	<StructureSection load='2nud' size='340' side='right' caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='2nud' size='340' side='right'caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Psesg Psesg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2NUD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Psesg Psesg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NUD FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1nh1\|1nh1]], [[2nun\|2nun]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 PSESG])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 PSESG])</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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [~~http~~://pdbe.org/2nud PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2nud PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2nud 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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [https://pdbe.org/2nud PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [https://www.ebi.ac.uk/pdbsum/2nud PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nud ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RIN4_ARATH RIN4_ARATH]] Essential regulator of plant defense, which plays a central role in resistance in case of infection by a pathogen. It is a common target for both type III avirulence proteins from P.syringae (AvrB, AvrRpm1 and AvrRpt2) and for the plant Resistance (R) proteins RPM1 and RPS2. In strains carrying the appropriate R gene for avirulence proteins of the pathogen, its association with avirulence proteins triggers a defense system including the hypersensitive response, which limits the spread of disease. In contrast, in plants lacking appropriate R genes, its association with avirulence proteins of the pathogen impairs the defense system and leads to the pathogen multiplication.<ref>PMID:11955429</ref> <ref>PMID:12581526</ref> <ref>PMID:12581527</ref>	+	[[https://www.uniprot.org/uniprot/RIN4_ARATH RIN4_ARATH]] Essential regulator of plant defense, which plays a central role in resistance in case of infection by a pathogen. It is a common target for both type III avirulence proteins from P.syringae (AvrB, AvrRpm1 and AvrRpt2) and for the plant Resistance (R) proteins RPM1 and RPS2. In strains carrying the appropriate R gene for avirulence proteins of the pathogen, its association with avirulence proteins triggers a defense system including the hypersensitive response, which limits the spread of disease. In contrast, in plants lacking appropriate R genes, its association with avirulence proteins of the pathogen impairs the defense system and leads to the pathogen multiplication.<ref>PMID:11955429</ref> <ref>PMID:12581526</ref> <ref>PMID:12581527</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Avirulence protein\|Avirulence protein]]	+	*[[Avirulence protein 3D structures\|Avirulence protein 3D structures]]
-	*[[Type III effector AvrB complexed with a high-affinity RIN4 peptide\|Type III effector AvrB complexed with a high-affinity RIN4 peptide]]	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Psesg]]		[[Category: Psesg]]
	[[Category: Dangl, J L]]		[[Category: Dangl, J L]]

OCA at 17:15, 15 August 2018

OCA — Wed, 15 Aug 2018 17:15:01 GMT

←Older revision		Revision as of 17:15, 15 August 2018
Line 1:		Line 1:
		+
	==The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide==		==The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide==
	<StructureSection load='2nud' size='340' side='right' caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2nud' size='340' side='right' caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 PSESG])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 PSESG])</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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [http://pdbe.org/2nud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [http://www.ebi.ac.uk/pdbsum/2nud 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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [http://pdbe.org/2nud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [http://www.ebi.ac.uk/pdbsum/2nud PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2nud ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nu/2nud_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nu/2nud_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 18:56, 9 February 2016

OCA — Tue, 09 Feb 2016 18:56:46 GMT

←Older revision		Revision as of 18:56, 9 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2nud ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:07, 11 September 2015

OCA — Fri, 11 Sep 2015 01:07:39 GMT

←Older revision		Revision as of 01:07, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2nud' size='340' side='right' caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2nud' size='340' side='right' caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_syringae_pv._glycinea Pseudomonas syringae pv. glycinea~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NUD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Psesg Psesg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NUD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 ~~Pseudomonas syringae pv. glycinea~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 PSESG])</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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [http://www.ebi.ac.uk/pdbsum/2nud 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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [http://pdbe.org/2nud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [http://www.ebi.ac.uk/pdbsum/2nud PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	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 2nud" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pseudomonas syringae pv. glycinea~~]]	+	[[Category: Psesg]]
	[[Category: Dangl, J L]]		[[Category: Dangl, J L]]
	[[Category: Desveaux, D]]		[[Category: Desveaux, D]]

OCA at 08:51, 25 December 2014

OCA — Thu, 25 Dec 2014 08:51:27 GMT

←Older revision		Revision as of 08:51, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_syringae_pv._glycinea Pseudomonas syringae pv. glycinea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NUD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_syringae_pv._glycinea Pseudomonas syringae pv. glycinea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NUD FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 Pseudomonas syringae pv. glycinea])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 Pseudomonas syringae pv. glycinea])</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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [http://www.ebi.ac.uk/pdbsum/2nud 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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [http://www.ebi.ac.uk/pdbsum/2nud PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RIN4_ARATH RIN4_ARATH]] Essential regulator of plant defense, which plays a central role in resistance in case of infection by a pathogen. It is a common target for both type III avirulence proteins from P.syringae (AvrB, AvrRpm1 and AvrRpt2) and for the plant Resistance (R) proteins RPM1 and RPS2. In strains carrying the appropriate R gene for avirulence proteins of the pathogen, its association with avirulence proteins triggers a defense system including the hypersensitive response, which limits the spread of disease. In contrast, in plants lacking appropriate R genes, its association with avirulence proteins of the pathogen impairs the defense system and leads to the pathogen multiplication.<ref>PMID:11955429</ref> <ref>PMID:12581526</ref> <ref>PMID:12581527</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Pseudomonas syringae pv. glycinea]]		[[Category: Pseudomonas syringae pv. glycinea]]
-	[[Category: Dangl, J L.]]	+	[[Category: Dangl, J L]]
-	[[Category: Desveaux, D.]]	+	[[Category: Desveaux, D]]
-	[[Category: McNulty, B.]]	+	[[Category: McNulty, B]]
-	[[Category: Singer, A U.]]	+	[[Category: Singer, A U]]
-	[[Category: Sondek, J.]]	+	[[Category: Sondek, J]]
-	[[Category: Wu, A J.]]	+	[[Category: Wu, A J]]
	[[Category: Avrb rin4 high-affinity crystal structure]]		[[Category: Avrb rin4 high-affinity crystal structure]]
	[[Category: Toxin-protein binding complex]]		[[Category: Toxin-protein binding complex]]

OCA at 20:08, 30 September 2014

OCA — Tue, 30 Sep 2014 20:08:23 GMT

←Older revision		Revision as of 20:08, 30 September 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_2nud\| PDB=2nud \| SCENE= }}~~	+	==The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide==
-	===The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide===	+	<StructureSection load='2nud' size='340' side='right' caption='[[2nud]], [[Resolution\|resolution]] 2.30Å' scene=''>
-	~~{{ABSTRACT_PUBMED_17397263}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2nud]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_syringae_pv._glycinea Pseudomonas syringae pv. glycinea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NUD FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ETF:TRIFLUOROETHANOL'>ETF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nh1\|1nh1]], [[2nun\|2nun]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">avrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318 Pseudomonas syringae pv. glycinea])</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=2nud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nud RCSB], [http://www.ebi.ac.uk/pdbsum/2nud PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nu/2nud_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The Pseudomonas syringae type III effector protein avirulence protein B (AvrB) is delivered into plant cells, where it targets the Arabidopsis RIN4 protein (resistance to Pseudomonas maculicula protein 1 [RPM1]-interacting protein). RIN4 is a regulator of basal host defense responses. Targeting of RIN4 by AvrB is recognized by the host RPM1 nucleotide-binding leucine-rich repeat disease resistance protein, leading to accelerated defense responses, cessation of pathogen growth, and hypersensitive host cell death at the infection site. We determined the structure of AvrB complexed with an AvrB-binding fragment of RIN4 at 2.3 A resolution. We also determined the structure of AvrB in complex with adenosine diphosphate bound in a binding pocket adjacent to the RIN4 binding domain. AvrB residues important for RIN4 interaction are required for full RPM1 activation. AvrB residues that contact adenosine diphosphate are also required for initiation of RPM1 function. Nucleotide-binding residues of AvrB are also required for its phosphorylation by an unknown Arabidopsis protein(s). We conclude that AvrB is activated inside the host cell by nucleotide binding and subsequent phosphorylation and, independently, interacts with RIN4. Our data suggest that activated AvrB, bound to RIN4, is indirectly recognized by RPM1 to initiate plant immune system function.

-	~~==About this Structure==~~	+	Type III effector activation via nucleotide binding, phosphorylation, and host target interaction.,Desveaux D, Singer AU, Wu AJ, McNulty BC, Musselwhite L, Nimchuk Z, Sondek J, Dangl JL PLoS Pathog. 2007 Mar;3(3):e48. PMID:17397263<ref>PMID:17397263</ref>
-	~~[[2nud]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudomonas_syringae_pv~~.~~_glycinea Pseudomonas syringae pv. glycinea]. Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=2NUD OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Avirulence protein\|Avirulence protein]]		*[[Avirulence protein\|Avirulence protein]]
	*[[Type III effector AvrB complexed with a high-affinity RIN4 peptide\|Type III effector AvrB complexed with a high-affinity RIN4 peptide]]		*[[Type III effector AvrB complexed with a high-affinity RIN4 peptide\|Type III effector AvrB complexed with a high-affinity RIN4 peptide]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017397263<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Pseudomonas syringae pv. glycinea]]		[[Category: Pseudomonas syringae pv. glycinea]]
	[[Category: Dangl, J L.]]		[[Category: Dangl, J L.]]

OCA at 11:01, 11 March 2013

OCA — Mon, 11 Mar 2013 11:01:32 GMT

←Older revision		Revision as of 11:01, 11 March 2013
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-	[[Image:2nud.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_2nud", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2nud\| PDB=2nud \| SCENE= }}		{{STRUCTURE_2nud\| PDB=2nud \| SCENE= }}
-
	===The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide===		===The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide===
-
-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17397263}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17397263 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17397263}}		{{ABSTRACT_PUBMED_17397263}}

Line 22:		Line 7:

	==See Also==		==See Also==
		+	*[[Avirulence protein\|Avirulence protein]]
	*[[Type III effector AvrB complexed with a high-affinity RIN4 peptide\|Type III effector AvrB complexed with a high-affinity RIN4 peptide]]		*[[Type III effector AvrB complexed with a high-affinity RIN4 peptide\|Type III effector AvrB complexed with a high-affinity RIN4 peptide]]

OCA at 07:21, 13 June 2012

OCA — Wed, 13 Jun 2012 07:21:25 GMT

←Older revision		Revision as of 07:21, 13 June 2012
Line 20:		Line 20:
	==About this Structure==		==About this Structure==
	[[2nud]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_syringae_pv._glycinea Pseudomonas syringae pv. glycinea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA].		[[2nud]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_syringae_pv._glycinea Pseudomonas syringae pv. glycinea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NUD OCA].
		+
		+	==See Also==
		+	*[[Type III effector AvrB complexed with a high-affinity RIN4 peptide\|Type III effector AvrB complexed with a high-affinity RIN4 peptide]]

	==Reference==		==Reference==

OCA: Protected "2nud" [edit=sysop:move=sysop]

OCA — Sun, 10 Jun 2012 15:48:30 GMT

Protected "2nud" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:48, 10 June 2012