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New page: left|200px<br /><applet load="1wmg" size="450" color="white" frame="true" align="right" spinBox="true" caption="1wmg, resolution 2.10Å" /> '''Crystal structure of...
 
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[[Image:1wmg.gif|left|200px]]<br /><applet load="1wmg" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1wmg, resolution 2.10&Aring;" />
'''Crystal structure of the UNC5H2 death domain'''<br />


==Overview==
==Crystal structure of the UNC5H2 death domain==
UNC5Hs (UNC5H1-4) are netrin 1 receptors that are involved in axonal, guidance and neuronal migration. They are dependence receptors that, mediate apoptosis in the absence of netrin 1. UNC5H2-induced apoptosis, depends on the interaction of the death domain at the C-terminus with the, DAP-kinase death domain and caspase cleavage near the transmembrane, region. Here, the crystal structure of the mouse UNC5H2 death domain has, been determined at 2.1 A resolution. The domain adopts a six-helix bundle, fold, which is similar to those of the other members of the death-domain, superfamily. The UNC5H2 death domain is a dimer in the crystal and in, solution. This homodimerized structure may represent the structure of the, death domain when netrin 1 binds to the UNC5H2 receptor. Homodimerization, of UNC5H2 may block the access of caspase to the cleavage site. In the, death-domain dimer, residues in alpha3 and the 3(10)-helix preceding, alpha3 and the residues in alpha4 make significant contacts, mainly by, hydrophobic and van der Waals interactions.
<StructureSection load='1wmg' size='340' side='right'caption='[[1wmg]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1wmg]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WMG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WMG FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO3:SULFITE+ION'>SO3</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=1wmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wmg OCA], [https://pdbe.org/1wmg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wmg RCSB], [https://www.ebi.ac.uk/pdbsum/1wmg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wmg ProSAT], [https://www.topsan.org/Proteins/RSGI/1wmg 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/wm/1wmg_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=1wmg ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
UNC5Hs (UNC5H1-4) are netrin 1 receptors that are involved in axonal guidance and neuronal migration. They are dependence receptors that mediate apoptosis in the absence of netrin 1. UNC5H2-induced apoptosis depends on the interaction of the death domain at the C-terminus with the DAP-kinase death domain and caspase cleavage near the transmembrane region. Here, the crystal structure of the mouse UNC5H2 death domain has been determined at 2.1 A resolution. The domain adopts a six-helix bundle fold, which is similar to those of the other members of the death-domain superfamily. The UNC5H2 death domain is a dimer in the crystal and in solution. This homodimerized structure may represent the structure of the death domain when netrin 1 binds to the UNC5H2 receptor. Homodimerization of UNC5H2 may block the access of caspase to the cleavage site. In the death-domain dimer, residues in alpha3 and the 3(10)-helix preceding alpha3 and the residues in alpha4 make significant contacts, mainly by hydrophobic and van der Waals interactions.


==About this Structure==
Structure of the UNC5H2 death domain.,Handa N, Kukimoto-Niino M, Akasaka R, Murayama K, Terada T, Inoue M, Yabuki T, Aoki M, Seki E, Matsuda T, Nunokawa E, Tanaka A, Hayashizaki Y, Kigawa T, Shirouzu M, Yokoyama S Acta Crystallogr D Biol Crystallogr. 2006 Dec;62(Pt 12):1502-9. Epub 2006, Nov 23. PMID:17139086<ref>PMID:17139086</ref>
1WMG is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] with SO3 and SO4 as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1WMG OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Structure of the UNC5H2 death domain., Handa N, Kukimoto-Niino M, Akasaka R, Murayama K, Terada T, Inoue M, Yabuki T, Aoki M, Seki E, Matsuda T, Nunokawa E, Tanaka A, Hayashizaki Y, Kigawa T, Shirouzu M, Yokoyama S, Acta Crystallogr D Biol Crystallogr. 2006 Dec;62(Pt 12):1502-9. Epub 2006, Nov 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17139086 17139086]
</div>
<div class="pdbe-citations 1wmg" style="background-color:#fffaf0;"></div>
 
==See Also==
*[[Netrin receptor|Netrin receptor]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
[[Category: Single protein]]
[[Category: Handa N]]
[[Category: Handa, N.]]
[[Category: Murayama K]]
[[Category: Murayama, K.]]
[[Category: Shirouzu M]]
[[Category: RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.]]
[[Category: Yokoyama S]]
[[Category: Shirouzu, M.]]
[[Category: Yokoyama, S.]]
[[Category: SO3]]
[[Category: SO4]]
[[Category: apoptosis]]
[[Category: death domain]]
[[Category: national project on protein structural and functional analyses]]
[[Category: nppsfa]]
[[Category: riken structural genomics/proteomics initiative]]
[[Category: rsgi]]
[[Category: six helix bundle]]
[[Category: structural genomics]]
 
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Latest revision as of 00:38, 21 November 2024

Crystal structure of the UNC5H2 death domain

1wmg, resolution 2.10Å

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