SMTL ID : 7uoh.1

PRMT5/MEP50 crystal structure with MTA and an achiral, class 1, non-atropisomeric inhibitor bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NXF: (2M)-2-[(4M)-4-{4-(aminomethyl)-1-oxo-8-[(2R)-oxolan-2-yl]-1,2-dihydrophthalazin-6-yl}-1-methyl-1H-pyrazol-5-yl]-1-benzothiophene-3-carbonitrile(Non-covalent)

NXF.1: 19 residues within 4Å: Chain A: F.308, Y.312, Q.317, S.318, P.319, L.320, V.334, F.335, K.341, E.443, L.444, L.445, E.452, V.511, F.585, S.586, W.587, F.588 Ligands: MTA.2 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.308, A:Y.312, A:L.320, A:V.334, A:F.335, A:F.588 Hydrogen bonds: A:L.320, A:K.341, A:E.443, A:L.445, A:W.587, A:F.588 pi-Stacking: A:F.335, A:F.335, A:W.587, A:W.587, A:W.587

1 x MTA: 5'-DEOXY-5'-METHYLTHIOADENOSINE(Non-covalent)

MTA.2: 16 residues within 4Å: Chain A: P.322, L.323, Y.332, F.335, G.373, G.375, E.400, K.401, N.402, S.426, D.427, M.428, E.443, L.444, C.457 Ligands: NXF.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.332, A:Y.332, A:G.375, A:K.401, A:D.427, A:M.428 pi-Cation interactions: A:K.401

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smith, C.R. et al., Design and evaluation of achiral, non-atropisomeric 4-(aminomethyl)phthalazin-1(2H)-one derivatives as novel PRMT5/MTA inhibitors. Bioorg.Med.Chem. (2022)

Release Date

2022-08-17

Peptides

Protein arginine N-methyltransferase 5: A
Methylosome protein 50: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein arginine N-methyltransferase 5

Methylosome protein 50

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