SMTL ID : 7p2r.1

Crystal structure of mouse PRMT6 in complex with inhibitor EML980

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x 4R7: methyl 6-[4-[[N-[2-[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]ethyl]carbamimidoyl]amino]butylcarbamoylamino]-4-oxidanyl-naphthalene-2-carboxylate(Non-covalent)

4R7.1: 22 residues within 4Å: Chain A: D.17, Y.20, Y.21, Y.24, H.30, M.33, G.63, G.65, V.84, E.85, A.86, S.87, G.111, P.112, V.113, E.114, E.128, W.129, M.130, E.137, M.139, S.142 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.20, A:Y.21, A:Y.24, A:E.137 Hydrogen bonds: A:D.17, A:Y.24, A:A.86, A:S.87, A:V.113, A:E.114, A:E.128, A:M.130, A:E.137, A:S.142 Salt bridges: A:E.128 4R7.3: 28 residues within 4Å: Chain B: Y.20, Y.21, Y.24, V.29, H.30, E.32, M.33, G.63, G.65, V.84, E.85, A.86, S.87, G.111, P.112, V.113, E.114, E.128, W.129, M.130, G.131, Y.132, E.137, M.139, S.142, H.290, W.291 Ligands: SAH.2 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:V.29 Hydrogen bonds: B:Y.24, B:Y.24, B:Y.24, B:G.65, B:A.86, B:V.113, B:E.114, B:W.129, B:Y.132, B:Y.132, B:E.137, B:S.142 Salt bridges: B:E.128

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.2: 23 residues within 4Å: Chain B: Y.20, Y.21, Y.24, H.30, M.33, R.39, G.63, A.64, G.65, I.68, L.69, V.84, E.85, A.86, S.87, G.111, P.112, V.113, E.114, E.128, M.139, S.142 Ligands: 4R7.3 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:H.30, B:G.63, B:G.63, B:A.86, B:V.113, B:E.114, B:S.142 Water bridges: B:G.67 Salt bridges: B:R.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iannelli, G. et al., Turning Nonselective Inhibitors of Type I Protein Arginine Methyltransferases into Potent and Selective Inhibitors of Protein Arginine Methyltransferase 4 through a Deconstruction-Reconstruction and Fragment-Growing Approach. J.Med.Chem. (2022)

Release Date

2022-05-11

Peptides

Protein arginine N-methyltransferase 6: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein arginine N-methyltransferase 6