ISDA

Deposition Date 2020-07-13

Release Date 2022-07-27

Last Version Date 2024-11-06

Entry Detail

PDB ID:

6ZRB

Keywords:

ONCOPROTEIN

Title:

Crystal structure of SMYD3 conjugate with piperidine-based covalent inhibitor EM127

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.55 Å

R-Value Free:

0.18

R-Value Work:

0.16

R-Value Observed:

0.16

Space Group:

P 21 21 21

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone-lysine N-methyltransferase SMYD3
Gene (Uniprot):SMYD3
Mutations:K13N, K140R
Chain IDs:A
Chain Length:431
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9H7B4 Pfam ID:PF00856, PF01753 EC:2.1.1.354

Ligand Molecules

ACT

QON

SAM

Primary Citation

Discovery of the 4-aminopiperidine-based compound EM127 for the site-specific covalent inhibition of SMYD3

Parenti, M.D, Naldi, M, Manoni, E, Fabini, E, Cederfelt, D, Talibov, V.O, Gressani, V, Guven, U, Grossi, V, Fasano, C, Sanese, P, De Marco, K, Shtil, A.A, Kurkin, A.V, Altieri, A, Danielson, U.H, Caretti, G, Simone, C, Varchi, G, Bartolini, M, Del Rio, A.Show

Eur.J.Med.Chem. ? 114683 ? (2022)

DOI: 10.1016/j.ejmech.2022.114683

Primary Citation of related structures