SMTL ID : 7mxg.1

PRMT5(M420T mutant):MEP50 complexed with inhibitor PF-06855800

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

hetero-4-4-mer

Ligands

4 x ZR4: 7-[(5R)-5-C-(4-chloro-3-fluorophenyl)-beta-D-ribofuranosyl]-7H-pyrrolo[2,3-d]pyrimidin-4-amine(Non-covalent)

ZR4.1: 21 residues within 4Å: Chain A: P.314, L.315, L.319, Y.324, F.327, Y.334, G.365, A.366, G.367, P.370, V.391, E.392, K.393, N.394, S.418, D.419, T.420, R.421, E.435, L.436, C.449 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.315, A:K.393 Hydrogen bonds: A:Y.324, A:G.367, A:E.392, A:K.393, A:D.419, A:T.420 Water bridges: A:K.393 pi-Stacking: A:Y.324 pi-Cation interactions: A:K.393 Halogen bonds: A:Y.324 ZR4.2: 22 residues within 4Å: Chain C: P.314, L.315, L.319, Y.324, F.327, E.328, Y.334, G.365, A.366, G.367, P.370, V.391, E.392, K.393, N.394, S.418, D.419, T.420, R.421, E.435, L.436, C.449 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:L.315, C:L.319, C:K.393, C:E.435, C:L.436 Hydrogen bonds: C:Y.324, C:Y.324, C:G.367, C:K.393, C:D.419, C:T.420 Water bridges: C:N.394, C:L.437 pi-Stacking: C:Y.324 pi-Cation interactions: C:K.393 Halogen bonds: C:Y.324 ZR4.3: 21 residues within 4Å: Chain E: P.314, L.315, L.319, Y.324, F.327, Y.334, G.365, A.366, G.367, P.370, V.391, E.392, K.393, N.394, S.418, D.419, T.420, R.421, E.435, L.436, C.449 12 PLIP interactions: 12 interactions with chain E Hydrophobic interactions: E:L.315, E:K.393 Hydrogen bonds: E:Y.324, E:G.367, E:E.392, E:K.393, E:D.419, E:T.420 Water bridges: E:K.393 pi-Stacking: E:Y.324 pi-Cation interactions: E:K.393 Halogen bonds: E:Y.324 ZR4.4: 22 residues within 4Å: Chain G: P.314, L.315, L.319, Y.324, F.327, E.328, Y.334, G.365, A.366, G.367, P.370, V.391, E.392, K.393, N.394, S.418, D.419, T.420, R.421, E.435, L.436, C.449 16 PLIP interactions: 16 interactions with chain G Hydrophobic interactions: G:L.315, G:L.319, G:K.393, G:E.435, G:L.436 Hydrogen bonds: G:Y.324, G:Y.324, G:G.367, G:K.393, G:D.419, G:T.420 Water bridges: G:N.394, G:L.437 pi-Stacking: G:Y.324 pi-Cation interactions: G:K.393 Halogen bonds: G:Y.324

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jensen-Pergakes, K. et al., SAM-Competitive PRMT5 Inhibitor PF-06939999 Demonstrates Antitumor Activity in Splicing Dysregulated NSCLC with Decreased Liability of Drug Resistance. Mol.Cancer Ther. (2022)

Release Date

2021-11-17

Peptides

Protein arginine N-methyltransferase 5: ACEG
Methylosome protein 50: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
A

G
C

B
B

D
D

F
B

H
D

Protein arginine N-methyltransferase 5

Methylosome protein 50

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