3ckd: Difference between revisions

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{{Seed}}
[[Image:3ckd.png|left|200px]]


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==Crystal structure of the C-terminal domain of the Shigella type III effector IpaH==
The line below this paragraph, containing "STRUCTURE_3ckd", creates the "Structure Box" on the page.
<StructureSection load='3ckd' size='340' side='right'caption='[[3ckd]], [[Resolution|resolution]] 2.65&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'>[[3ckd]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Shigella_flexneri_2a_str._301 Shigella flexneri 2a str. 301]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CKD 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]] 2.65&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_3ckd|  PDB=3ckd  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ckd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ckd OCA], [https://pdbe.org/3ckd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ckd RCSB], [https://www.ebi.ac.uk/pdbsum/3ckd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ckd ProSAT], [https://www.topsan.org/Proteins/MCSG/3ckd TOPSAN]</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/ck/3ckd_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3ckd ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
IpaH proteins are E3 ubiquitin ligases delivered by the type III secretion apparatus into host cells upon infection of humans by the Gram-negative pathogen Shigella flexneri. These proteins comprise a variable leucine-rich repeat-containing N-terminal domain and a conserved C-terminal domain harboring an invariant cysteine residue that is crucial for activity. IpaH homologs are encoded by diverse animal and plant pathogens. Here we demonstrate that the IpaH C-terminal domain carries the catalytic activity for ubiquitin transfer and that the N-terminal domain carries the substrate specificity. The structure of the IpaH C-terminal domain, determined to 2.65-A resolution, represents an all-helical fold bearing no resemblance to previously defined E3 ubiquitin ligases. The conserved and essential cysteine residue lies on a flexible, surface-exposed loop surrounded by conserved acidic residues, two of which are crucial for IpaH activity.


===Crystal structure of the C-terminal domain of the Shigella type III effector IpaH===
Structure of the Shigella T3SS effector IpaH defines a new class of E3 ubiquitin ligases.,Singer AU, Rohde JR, Lam R, Skarina T, Kagan O, Dileo R, Chirgadze NY, Cuff ME, Joachimiak A, Tyers M, Sansonetti PJ, Parsot C, Savchenko A Nat Struct Mol Biol. 2008 Dec;15(12):1293-301. Epub 2008 Nov 9. PMID:18997778<ref>PMID:18997778</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
3CKD is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Shigella_flexneri_2a_str._301 Shigella flexneri 2a str. 301]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CKD OCA].
<div class="pdbe-citations 3ckd" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Shigella flexneri 2a str. 301]]
[[Category: Shigella flexneri 2a str. 301]]
[[Category: Ubiquitin--protein ligase]]
[[Category: Cuff ME]]
[[Category: Cuff, M E.]]
[[Category: DiLeo R]]
[[Category: DiLeo, R.]]
[[Category: Edwards AM]]
[[Category: Edwards, A M.]]
[[Category: Joachimiak A]]
[[Category: Joachimiak, A.]]
[[Category: Kagan O]]
[[Category: Kagan, O.]]
[[Category: Lam R]]
[[Category: Lam, R.]]
[[Category: Savchenko A]]
[[Category: MCSG, Midwest Center for Structural Genomics.]]
[[Category: Singer AU]]
[[Category: Savchenko, A.]]
[[Category: Skarina T]]
[[Category: Singer, A U.]]
[[Category: Skarina, T.]]
[[Category: E3 ubiquitin ligase]]
[[Category: Helical]]
[[Category: Mcsg]]
[[Category: Midwest center for structural genomic]]
[[Category: Plasmid]]
[[Category: Protein structure initiative]]
[[Category: Psi-2]]
[[Category: Structural genomic]]
[[Category: Type iii effector]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 14:52:35 2008''

Latest revision as of 01:41, 21 November 2024

Crystal structure of the C-terminal domain of the Shigella type III effector IpaH

3ckd, resolution 2.65Å

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