4jvf

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{{STRUCTURE_4jvf| PDB=4jvf | SCENE= }}
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==The Crystal structure of PDE6D in complex with the inhibitor (s)-5==
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===The Crystal structure of PDE6D in complex with the inhibitor (s)-5===
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<StructureSection load='4jvf' size='340' side='right' caption='[[4jvf]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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{{ABSTRACT_PUBMED_23698361}}
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== Structural highlights ==
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<table><tr><td colspan='2'>[[4jvf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JVF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4JVF FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=17X:(2S)-2-(2-PHENYL-1H-BENZIMIDAZOL-1-YL)-2-(PIPERIDIN-4-YL)ETHYL+1-(1-BENZYL-1H-BENZIMIDAZOL-2-YL)PIPERIDINE-4-CARBOXYLATE'>17X</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4jv6|4jv6]], [[4jv8|4jv8]], [[4jvb|4jvb]]</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PDE6D, PDED ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
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<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=4jvf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jvf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4jvf RCSB], [http://www.ebi.ac.uk/pdbsum/4jvf PDBsum]</span></td></tr>
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</table>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The KRAS oncogene product is considered a major target in anticancer drug discovery. However, direct interference with KRAS signalling has not yet led to clinically useful drugs. Correct localization and signalling by farnesylated KRAS is regulated by the prenyl-binding protein PDEdelta, which sustains the spatial organization of KRAS by facilitating its diffusion in the cytoplasm. Here we report that interfering with binding of mammalian PDEdelta to KRAS by means of small molecules provides a novel opportunity to suppress oncogenic RAS signalling by altering its localization to endomembranes. Biochemical screening and subsequent structure-based hit optimization yielded inhibitors of the KRAS-PDEdelta interaction that selectively bind to the prenyl-binding pocket of PDEdelta with nanomolar affinity, inhibit oncogenic RAS signalling and suppress in vitro and in vivo proliferation of human pancreatic ductal adenocarcinoma cells that are dependent on oncogenic KRAS. Our findings may inspire novel drug discovery efforts aimed at the development of drugs targeting oncogenic RAS.
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==Function==
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Small molecule inhibition of the KRAS-PDEdelta interaction impairs oncogenic KRAS signalling.,Zimmermann G, Papke B, Ismail S, Vartak N, Chandra A, Hoffmann M, Hahn SA, Triola G, Wittinghofer A, Bastiaens PI, Waldmann H Nature. 2013 May 30;497(7451):638-42. doi: 10.1038/nature12205. Epub 2013 May 22. PMID:23698361<ref>PMID:23698361</ref>
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[[http://www.uniprot.org/uniprot/PDE6D_HUMAN PDE6D_HUMAN]] Acts as a GTP specific dissociation inhibitor (GDI). Increases the affinity of ARL3 for GTP by several orders of magnitude and does so by decreasing the nucleotide dissociation rate. Stabilizes Arl3-GTP by decreasing the nucleotide dissociation (By similarity).
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==About this Structure==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[4jvf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JVF OCA].
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</div>
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==Reference==
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==See Also==
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<ref group="xtra">PMID:023698361</ref><references group="xtra"/><references/>
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*[[Phosphodiesterase|Phosphodiesterase]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Bastiaens, P.]]
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[[Category: Bastiaens, P]]
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[[Category: Chandra, A.]]
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[[Category: Chandra, A]]
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[[Category: Gunther, Z.]]
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[[Category: Gunther, Z]]
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[[Category: Hahn, S.]]
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[[Category: Hahn, S]]
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[[Category: Hoffmann, M.]]
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[[Category: Hoffmann, M]]
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[[Category: Ismail, S.]]
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[[Category: Ismail, S]]
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[[Category: Papke, B.]]
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[[Category: Papke, B]]
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[[Category: Triola, G.]]
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[[Category: Triola, G]]
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[[Category: Vartak, N.]]
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[[Category: Vartak, N]]
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[[Category: Waldmann, H.]]
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[[Category: Waldmann, H]]
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[[Category: Wittinghofer, A.]]
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[[Category: Wittinghofer, A]]
[[Category: Gdi-like solubilizing factor]]
[[Category: Gdi-like solubilizing factor]]
[[Category: Immunoglobulin-like beta-sandwich]]
[[Category: Immunoglobulin-like beta-sandwich]]
[[Category: Prenyl binding]]
[[Category: Prenyl binding]]
[[Category: Protein binding-inhibitor complex]]
[[Category: Protein binding-inhibitor complex]]

Revision as of 14:34, 21 December 2014

The Crystal structure of PDE6D in complex with the inhibitor (s)-5

4jvf, resolution 2.40Å

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