9dm6

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'''Unreleased structure'''
 
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The entry 9dm6 is ON HOLD until Paper Publication
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==Crystal Structure of Danio rerio histone deacetylase 6 catalytic domain 2 complexed with an ethylhydrazide inhibitor==
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<StructureSection load='9dm6' size='340' side='right'caption='[[9dm6]], [[Resolution|resolution]] 1.40&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[9dm6]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9DM6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9DM6 FirstGlance]. <br>
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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]] 1.4&#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=A1A6L:N-[2-(benzylamino)-2-oxoethyl]-4-(dimethylamino)-N-{[4-(2-ethylhydrazine-1-carbonyl)phenyl]methyl}benzamide'>A1A6L</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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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=9dm6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9dm6 OCA], [https://pdbe.org/9dm6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9dm6 RCSB], [https://www.ebi.ac.uk/pdbsum/9dm6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9dm6 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/A7YT55_DANRE A7YT55_DANRE]
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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In this work, we synthesized a series of peptoid-based histone deacetylase (HDAC) inhibitors with variations in the linker region and zinc-binding groups. All compounds were investigated for their HDAC inhibition, antiplasmodial activity, and cytotoxicity against native and cisplatin-resistant carcinoma cell lines. The ethylhydrazide 20 (DS-103) proved to be the most effective compound in these primary screenings. DS-103 showed nanomolar inhibition of class I HDACs and of HDAC6 (class IIb). To further investigate the binding mode of DS-103, a crystal structure of DS-103 in complex with HDAC6 was obtained, which represents the first reported crystal structure of an alkylhydrazide in complex with an HDAC enzyme. Importantly, DS-103 completely reversed cisplatin resistance in two different platinum-resistant solid cancer cell lines and demonstrated strong synergism with cisplatin. The synergistic anticancer effects are mediated by increased DNA damage and p21 expression, resulting in caspase-mediated apoptosis and cell death.
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Authors:
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Exploring Alternative Zinc-Binding Groups in Histone Deacetylase (HDAC) Inhibitors Uncovers DS-103 as a Potent Ethylhydrazide-Based HDAC Inhibitor with Chemosensitizing Properties.,Stopper D, Biermann L, Watson PR, Li J, Konig B, Gaynes MN, Pessanha de Carvalho L, Klose J, Hanl M, Hamacher A, Schaker-Hubner L, Ramsbeck D, Held J, Christianson DW, Kassack MU, Hansen FK J Med Chem. 2025 Feb 13. doi: 10.1021/acs.jmedchem.4c02373. PMID:39946728<ref>PMID:39946728</ref>
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Description:
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[Category: Unreleased Structures]]
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</div>
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<div class="pdbe-citations 9dm6" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Danio rerio]]
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[[Category: Large Structures]]
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[[Category: Christianson DW]]
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[[Category: Gaynes MN]]
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[[Category: Konig B]]
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[[Category: Watson PR]]

Revision as of 19:06, 26 February 2025

Crystal Structure of Danio rerio histone deacetylase 6 catalytic domain 2 complexed with an ethylhydrazide inhibitor

PDB ID 9dm6

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