5th7: Difference between revisions

From Proteopedia
Jump to navigationJump to search
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
New page: '''Unreleased structure''' The entry 5th7 is ON HOLD Authors: Yu, W., Tempel, W., Babault, N., Ma, A., Butler, K.V., Jin, J., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Brown, P.J., ...
 
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
(5 intermediate revisions by the same user not shown)
Line 1: Line 1:
'''Unreleased structure'''


The entry 5th7 is ON HOLD
==Complex of SETD8 with MS453==
<StructureSection load='5th7' size='340' side='right'caption='[[5th7]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5th7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TH7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TH7 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]] 1.95&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7BY:N-(3-{[6,7-DIMETHOXY-2-(PYRROLIDIN-1-YL)QUINAZOLIN-4-YL]AMINO}PROPYL)PROPANAMIDE'>7BY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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=5th7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5th7 OCA], [https://pdbe.org/5th7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5th7 RCSB], [https://www.ebi.ac.uk/pdbsum/5th7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5th7 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/KMT5A_HUMAN KMT5A_HUMAN] Protein-lysine N-methyltransferase that monomethylates both histones and non-histone proteins. Specifically monomethylates 'Lys-20' of histone H4 (H4K20me1). H4K20me1 is enriched during mitosis and represents a specific tag for epigenetic transcriptional repression. Mainly functions in euchromatin regions, thereby playing a central role in the silencing of euchromatic genes. Required for cell proliferation, probably by contributing to the maintenance of proper higher-order structure of DNA during mitosis. Involved in chromosome condensation and proper cytokinesis. Nucleosomes are preferred as substrate compared to free histones. Mediates monomethylation of p53/TP53 at 'Lys-382', leading to repress p53/TP53-target genes. Plays a negative role in TGF-beta response regulation and a positive role in cell migration.<ref>PMID:12086618</ref> <ref>PMID:12121615</ref> <ref>PMID:15200950</ref> <ref>PMID:15933069</ref> <ref>PMID:15933070</ref> <ref>PMID:16517599</ref> <ref>PMID:17707234</ref> <ref>PMID:23478445</ref>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Selective inhibitors of protein lysine methyltransferases, including SET domain-containing protein 8 (SETD8), are highly desired, as only a fraction of these enzymes are associated with high-quality inhibitors. From our previously discovered SETD8 inhibitor, we developed a more potent analog and solved a cocrystal structure, which is the first crystal structure of SETD8 in complex with a small-molecule inhibitor. This cocrystal structure allowed the design of a covalent inhibitor of SETD8 (MS453), which specifically modifies a cysteine residue near the inhibitor binding site, has an IC50 value of 804 nM, reacts with SETD8 with near-quantitative yield, and is selective for SETD8 against 28 other methyltransferases. We also solved the crystal structure of the covalent inhibitor in complex with SETD8. This work provides atomic-level perspective on the inhibition of SETD8 by small molecules and will help identify high-quality chemical probes of SETD8.


Authors: Yu, W., Tempel, W., Babault, N., Ma, A., Butler, K.V., Jin, J., Arrowsmith, C.H., Bountra, C., Edwards, A.M., Brown, P.J., Structural Genomics Consortium
Structure-Based Design of a Covalent Inhibitor of the SET Domain-Containing Protein 8 (SETD8) Lysine Methyltransferase.,Butler KV, Ma A, Yu W, Li F, Tempel W, Babault N, Pittella-Silva F, Shao J, Wang J, Luo M, Vedadi M, Brown PJ, Arrowsmith CH, Jin J J Med Chem. 2016 Nov 10;59(21):9881-9889. doi: 10.1021/acs.jmedchem.6b01244. Epub, 2016 Nov 2. PMID:27804297<ref>PMID:27804297</ref>


Description: Complex of SETD8 with MS453
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Yu, W]]
<div class="pdbe-citations 5th7" style="background-color:#fffaf0;"></div>
[[Category: Butler, K.V]]
 
[[Category: Babault, N]]
==See Also==
[[Category: Jin, J]]
*[[Histone methyltransferase 3D structures|Histone methyltransferase 3D structures]]
[[Category: Bountra, C]]
== References ==
[[Category: Tempel, W]]
<references/>
[[Category: Arrowsmith, C.H]]
__TOC__
[[Category: Brown, P.J]]
</StructureSection>
[[Category: Edwards, A.M]]
[[Category: Homo sapiens]]
[[Category: Ma, A]]
[[Category: Large Structures]]
[[Category: Structural Genomics Consortium]]
[[Category: Arrowsmith CH]]
[[Category: Babault N]]
[[Category: Bountra C]]
[[Category: Brown PJ]]
[[Category: Butler KV]]
[[Category: Edwards AM]]
[[Category: Jin J]]
[[Category: Ma A]]
[[Category: Tempel W]]
[[Category: Yu W]]
Retrieved from "https://proteopedia.org/5th7"