2nud

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 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 PD...)
Current revision (10:21, 30 August 2023) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2nud.png|left|200px]]
 
-
<!--
+
==The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide==
-
The line below this paragraph, containing "STRUCTURE_2nud", creates the "Structure Box" on the page.
+
<StructureSection load='2nud' size='340' side='right'caption='[[2nud]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<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>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3&#8491;</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>
-
{{STRUCTURE_2nud| PDB=2nud | SCENE= }}
+
<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>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/AVRB_PSESG AVRB_PSESG]
 +
== 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/main_output.php?pdb_ID=2nud 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.
-
===The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide===
+
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>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 2nud" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_17397263}}, adds the Publication Abstract to the page
+
*[[Avirulence protein 3D structures|Avirulence protein 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 17397263 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_17397263}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Arabidopsis thaliana]]
-
[[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].
+
[[Category: Large Structures]]
-
 
+
[[Category: Pseudomonas savastanoi pv. glycinea]]
-
==Reference==
+
[[Category: Dangl JL]]
-
<ref group="xtra">PMID:017397263</ref><references group="xtra"/>
+
[[Category: Desveaux D]]
-
[[Category: Pseudomonas syringae pv. glycinea]]
+
[[Category: McNulty B]]
-
[[Category: Dangl, J L.]]
+
[[Category: Singer AU]]
-
[[Category: Desveaux, D.]]
+
[[Category: Sondek J]]
-
[[Category: McNulty, B.]]
+
[[Category: Wu AJ]]
-
[[Category: Singer, A U.]]
+
-
[[Category: Sondek, J.]]
+
-
[[Category: Wu, A J.]]
+
-
[[Category: Avrb rin4 high-affinity crystal structure]]
+
-
[[Category: Toxin-protein binding complex]]
+

Current revision

The structure of the type III effector AvrB complexed with a high-affinity RIN4 peptide

PDB ID 2nud

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools