3buz: Difference between revisions

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==Crystal structure of ia-bTAD-actin complex==
The line below this paragraph, containing "STRUCTURE_3buz", creates the "Structure Box" on the page.
<StructureSection load='3buz' size='340' side='right'caption='[[3buz]], [[Resolution|resolution]] 2.81&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'>[[3buz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens] and [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BUZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BUZ 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]] 2.81&#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=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=LAR:LATRUNCULIN+A'>LAR</scene>, <scene name='pdbligand=TAD:BETA-METHYLENE-THIAZOLE-4-CARBOXYAMIDE-ADENINE+DINUCLEOTIDE'>TAD</scene></td></tr>
{{STRUCTURE_3buz|  PDB=3buz  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3buz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3buz OCA], [https://pdbe.org/3buz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3buz RCSB], [https://www.ebi.ac.uk/pdbsum/3buz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3buz ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q46220_CLOPF Q46220_CLOPF]
== 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/bu/3buz_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=3buz ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The ADP-ribosylating toxins (ADPRTs) produced by pathogenic bacteria modify intracellular protein and affect eukaryotic cell function. Actin-specific ADPRTs (including Clostridium perfringens iota-toxin and Clostridium botulinum C2 toxin) ADP-ribosylate G-actin at Arg-177, leading to disorganization of the cytoskeleton and cell death. Although the structures of many actin-specific ADPRTs are available, the mechanisms underlying actin recognition and selective ADP-ribosylation of Arg-177 remain unknown. Here we report the crystal structure of actin-Ia in complex with the nonhydrolyzable NAD analog betaTAD at 2.8 A resolution. The structure indicates that Ia recognizes actin via five loops around NAD: loop I (Tyr-60-Tyr-62 in the N domain), loop II (active-site loop), loop III, loop IV (PN loop), and loop V (ADP-ribosylating turn-turn loop). We used site-directed mutagenesis to confirm that loop I on the N domain and loop II are essential for the ADP-ribosyltransferase activity. Furthermore, we revealed that Glu-378 on the EXE loop is in close proximity to Arg-177 in actin, and we proposed that the ADP-ribosylation of Arg-177 proceeds by an SN1 reaction via first an oxocarbenium ion intermediate and second a cationic intermediate by alleviating the strained conformation of the first oxocarbenium ion. Our results suggest a common reaction mechanism for ADPRTs. Moreover, the structure might be of use in rational drug design to block toxin-substrate recognition.


'''Crystal structure of ia-bTAD-actin complex'''
Structural basis of actin recognition and arginine ADP-ribosylation by Clostridium perfringens iota-toxin.,Tsuge H, Nagahama M, Oda M, Iwamoto S, Utsunomiya H, Marquez VE, Katunuma N, Nishizawa M, Sakurai J Proc Natl Acad Sci U S A. 2008 May 27;105(21):7399-404. Epub 2008 May 19. PMID:18490658<ref>PMID:18490658</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3buz" style="background-color:#fffaf0;"></div>


==About this Structure==
==See Also==
3BUZ is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens] and [http://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BUZ OCA].
*[[Actin 3D structures|Actin 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Clostridium perfringens]]
[[Category: Clostridium perfringens]]
[[Category: Large Structures]]
[[Category: Oryctolagus cuniculus]]
[[Category: Oryctolagus cuniculus]]
[[Category: Protein complex]]
[[Category: Iwamoto S]]
[[Category: Iwamoto, S.]]
[[Category: Katunuma N]]
[[Category: Katunuma, N.]]
[[Category: Marquez VE]]
[[Category: Marquez, V E.]]
[[Category: Nagahama M]]
[[Category: Nagahama, M.]]
[[Category: Nishizawa M]]
[[Category: Nishizawa, M.]]
[[Category: Oda M]]
[[Category: Oda, M.]]
[[Category: Sakurai J]]
[[Category: Sakurai, J.]]
[[Category: Tsuge H]]
[[Category: Tsuge, H.]]
[[Category: Utsunomiya H]]
[[Category: Utsunomiya, H.]]
[[Category: Acetylation]]
[[Category: Actin]]
[[Category: Atp-binding]]
[[Category: Cytoplasm]]
[[Category: Cytoskeleton]]
[[Category: Iota toxin]]
[[Category: Methylation]]
[[Category: Muscle protein]]
[[Category: Nucleotide-binding]]
[[Category: Structural protein]]
[[Category: Toxin-actin complex]]
[[Category: Toxin/structural protein complex]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 14 11:31:10 2008''
Retrieved from "https://proteopedia.org/3buz"