3sem

From Proteopedia

(Difference between revisions)

Current revision

SEM5 SH3 DOMAIN COMPLEXED WITH PEPTOID INHIBITOR

Structural highlights

3sem is a 4 chain structure with sequence from Caenorhabditis elegans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.2Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

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.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

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.

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:9851931^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Nguyen JT, Turck CW, Cohen FE, Zuckermann RN, Lim WA. Exploiting the basis of proline recognition by SH3 and WW domains: design of N-substituted inhibitors. Science. 1998 Dec 11;282(5396):2088-92. PMID:9851931

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3sem"

@@ Line 1: / Line 1: @@
 ==SEM5 SH3 DOMAIN COMPLEXED WITH PEPTOID INHIBITOR==
-<StructureSection load='3sem' size='340' side='right' caption='[[3sem]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
+<StructureSection load='3sem' size='340' side='right'caption='[[3sem]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3sem]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Caeel Caeel]. 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SEM FirstGlance]. <br>
+<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>
-</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMC:N-CYCLOPROPYLMETHYL+GLYCINE'>NMC</scene></td></tr>
+</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>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3sem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sem OCA], [http://pdbe.org/3sem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3sem RCSB], [http://www.ebi.ac.uk/pdbsum/3sem PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3sem ProSAT]</span></td></tr>
+<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>
+<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>
 </table>
 == Function ==
-[[http://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.
+[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.
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 14: / Line 15: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/se/3sem_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 32: / Line 33: @@
 __TOC__
 </StructureSection>
-[[Category: Caeel]]
+[[Category: Caenorhabditis elegans]]
-[[Category: Cohen, F E]]
+[[Category: Large Structures]]
-[[Category: Lim, W A]]
+[[Category: Cohen FE]]
-[[Category: Nguyen, J T]]
+[[Category: Lim WA]]
-[[Category: Turck, C W]]
+[[Category: Nguyen JT]]
-[[Category: Zuckermann, R N]]
+[[Category: Turck CW]]
-[[Category: Inhibitor]]
+[[Category: Zuckermann RN]]
-[[Category: Peptoid]]
-[[Category: Proline-rich motif]]
-[[Category: Protein-protein recognition]]
-[[Category: Sh3 domain]]
-[[Category: Signal transduction]]
-[[Category: Signaling protein-inhibitor complex]]

3sem

From Proteopedia

Current revision

SEM5 SH3 DOMAIN COMPLEXED WITH PEPTOID INHIBITOR

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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