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3sem

From Proteopedia

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(New page: 200px<br /><applet load="3sem" size="450" color="white" frame="true" align="right" spinBox="true" caption="3sem, resolution 2.2&Aring;" /> '''SEM5 SH3 DOMAIN COMPL...)
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[[Image:3sem.jpg|left|200px]]<br /><applet load="3sem" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="3sem, resolution 2.2&Aring;" />
 
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'''SEM5 SH3 DOMAIN COMPLEXED WITH PEPTOID INHIBITOR'''<br />
 
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==Overview==
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==SEM5 SH3 DOMAIN COMPLEXED WITH PEPTOID INHIBITOR==
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Src homology 3 (SH3) and WW protein interaction domains bind specific, proline-rich sequences. However, instead of recognizing critical prolines, on the basis of side chain shape or rigidity, these domains broadly, accepted amide N-substituted residues. Proline is apparently specifically, selected in vivo, despite low complementarity, because it is the only, endogenous N-substituted amino acid. This discriminatory mechanism, explains how these domains achieve specific but low-affinity recognition, a property that is necessary for transient signaling interactions. The, mechanism can be exploited: screening a series of ligands in which key, prolines were replaced by nonnatural N-substituted residues yielded a, ligand that selectively bound the Grb2 SH3 domain with 100 times greater, affinity.
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<StructureSection load='3sem' size='340' side='right'caption='[[3sem]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[3sem]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SEM FirstGlance]. <br>
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3SEM is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=3SEM OCA].
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#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=NMC:N-CYCLOPROPYLMETHYL+GLYCINE'>NMC</scene></td></tr>
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==Reference==
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3sem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sem OCA], [https://pdbe.org/3sem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sem RCSB], [https://www.ebi.ac.uk/pdbsum/3sem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sem ProSAT]</span></td></tr>
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Exploiting the basis of proline recognition by SH3 and WW domains: design of N-substituted inhibitors., Nguyen JT, Turck CW, Cohen FE, Zuckermann RN, Lim WA, Science. 1998 Dec 11;282(5396):2088-92. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9851931 9851931]
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SEM5_CAEEL SEM5_CAEEL] Acts both in vulval induction and sex myoblast migration. Presumably interacts with the kinase receptor let-23 and with a target that modifies the Ras-like protein let-60.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/se/3sem_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=3sem ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Caenorhabditis elegans]]
[[Category: Caenorhabditis elegans]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Cohen, F.E.]]
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[[Category: Cohen FE]]
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[[Category: Lim, W.A.]]
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[[Category: Lim WA]]
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[[Category: Nguyen, J.T.]]
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[[Category: Nguyen JT]]
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[[Category: Turck, C.W.]]
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[[Category: Turck CW]]
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[[Category: Zuckermann, R.N.]]
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[[Category: Zuckermann RN]]
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[[Category: inhibitors]]
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[[Category: peptoids]]
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[[Category: proline-rich motifs]]
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[[Category: protein-protein recognition]]
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[[Category: sh3 domain]]
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[[Category: signal transduction]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 19:58:27 2007''
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Current revision

SEM5 SH3 DOMAIN COMPLEXED WITH PEPTOID INHIBITOR

PDB ID 3sem

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