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New page: left|200px<br /><applet load="1q47" size="450" color="white" frame="true" align="right" spinBox="true" caption="1q47, resolution 2.8Å" /> '''Structure of the Sema...
 
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[[Image:1q47.gif|left|200px]]<br /><applet load="1q47" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1q47, resolution 2.8&Aring;" />
'''Structure of the Semaphorin 3A Receptor-Binding Module'''<br />


==Overview==
==Structure of the Semaphorin 3A Receptor-Binding Module==
The semaphorins are a large group of extracellular proteins involved in a, variety of processes during development, including neuronal migration and, axon guidance. Their distinctive feature is a conserved 500 amino acid, semaphorin domain, a ligand-receptor interaction module also present in, plexins and scatter-factor receptors. We report the crystal structure of a, secreted 65 kDa form of Semaphorin-3A (Sema3A), containing the full, semaphorin domain. Unexpectedly, the semaphorin fold is a variation of the, beta propeller topology. Analysis of the Sema3A structure and, structure-based mutagenesis data identify the neuropilin binding site and, suggest a potential plexin interaction site. Based on the structure, we, present a model for the initiation of semaphorin signaling and discuss, potential similarities with the signaling mechanisms of other beta, propeller cell surface receptors, such as integrins and the LDL receptor.
<StructureSection load='1q47' size='340' side='right'caption='[[1q47]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1q47]] is a 2 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=1Q47 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q47 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]] 2.8&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=1q47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q47 OCA], [https://pdbe.org/1q47 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q47 RCSB], [https://www.ebi.ac.uk/pdbsum/1q47 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q47 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/SEM3A_MOUSE SEM3A_MOUSE] Plays a role in growth cones guidance. May function to pattern sensory projections by selectively repelling axons that normally terminate dorsally.
== 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/q4/1q47_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=1q47 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The semaphorins are a large group of extracellular proteins involved in a variety of processes during development, including neuronal migration and axon guidance. Their distinctive feature is a conserved 500 amino acid semaphorin domain, a ligand-receptor interaction module also present in plexins and scatter-factor receptors. We report the crystal structure of a secreted 65 kDa form of Semaphorin-3A (Sema3A), containing the full semaphorin domain. Unexpectedly, the semaphorin fold is a variation of the beta propeller topology. Analysis of the Sema3A structure and structure-based mutagenesis data identify the neuropilin binding site and suggest a potential plexin interaction site. Based on the structure, we present a model for the initiation of semaphorin signaling and discuss potential similarities with the signaling mechanisms of other beta propeller cell surface receptors, such as integrins and the LDL receptor.


==About this Structure==
Structure of the semaphorin-3A receptor binding module.,Antipenko A, Himanen JP, van Leyen K, Nardi-Dei V, Lesniak J, Barton WA, Rajashankar KR, Lu M, Hoemme C, Puschel AW, Nikolov DB Neuron. 2003 Aug 14;39(4):589-98. PMID:12925274<ref>PMID:12925274</ref>
1Q47 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 NAG as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1Q47 OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Structure of the semaphorin-3A receptor binding module., Antipenko A, Himanen JP, van Leyen K, Nardi-Dei V, Lesniak J, Barton WA, Rajashankar KR, Lu M, Hoemme C, Puschel AW, Nikolov DB, Neuron. 2003 Aug 14;39(4):589-98. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12925274 12925274]
</div>
<div class="pdbe-citations 1q47" style="background-color:#fffaf0;"></div>
 
==See Also==
*[[Semaphorin 3D structures|Semaphorin 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
[[Category: Single protein]]
[[Category: Antipenko A]]
[[Category: Antipenko, A.]]
[[Category: Barton WA]]
[[Category: Barton, W.A.]]
[[Category: Himanen J-P]]
[[Category: Himanen, J-P.]]
[[Category: Hoemme C]]
[[Category: Hoemme, C.]]
[[Category: Lesniak J]]
[[Category: Lesniak, J.]]
[[Category: Lu M]]
[[Category: Leyen, K.van.]]
[[Category: Nardi-Dei V]]
[[Category: Lu, M.]]
[[Category: Nikolov D]]
[[Category: Nardi-Dei, V.]]
[[Category: Puschel A]]
[[Category: Nikolov, D.]]
[[Category: Rajashankar KR]]
[[Category: Puschel, A.]]
[[Category: Van Leyen K]]
[[Category: Rajashankar, K.R.]]
[[Category: NAG]]
[[Category: beta propeller]]
 
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