SMTL ID : 5u4x.1 (1 other biounit)

Coactivator-associated arginine methyltransferase 1 with TP-064

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 23 residues within 4Å: Chain A: Y.10, F.11, Y.14, Q.20, M.23, R.29, G.53, C.54, G.55, I.58, L.59, V.74, E.75, A.76, S.77, G.101, K.102, V.103, E.104, E.118, M.129, S.132 Ligands: 7VM.2 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:Y.10, A:Q.20, A:G.53, A:G.55, A:A.76, A:V.103, A:E.104, A:S.132 Water bridges: A:E.118 Salt bridges: A:R.29 pi-Stacking: A:F.11 SAH.5: 22 residues within 4Å: Chain B: Y.10, F.11, Y.14, Q.20, M.23, R.29, G.53, C.54, G.55, I.58, L.59, E.75, A.76, S.77, G.101, K.102, V.103, E.104, E.118, M.129, S.132 Ligands: 7VM.6 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.20, B:G.53, B:G.55, B:A.76, B:K.102, B:V.103, B:E.104, B:S.132 Water bridges: B:Q.20, B:E.118 Salt bridges: B:R.29 pi-Stacking: B:F.11

2 x 7VM: N-methyl-N-[(2-{1-[2-(methylamino)ethyl]piperidin-4-yl}pyridin-4-yl)methyl]-3-phenoxybenzamide(Non-covalent)

7VM.2: 17 residues within 4Å: Chain A: Y.10, F.13, Y.14, M.23, E.118, M.120, Y.122, N.126, E.127, H.275, W.276, R.306, Q.307, K.331, P.333, F.335 Ligands: SAH.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.10, A:F.13, A:Y.122, A:Q.307, A:K.331, A:P.333, A:F.335 Hydrogen bonds: A:M.120 Water bridges: A:Y.14 Salt bridges: A:E.118, A:E.127 pi-Stacking: A:F.13 7VM.6: 18 residues within 4Å: Chain B: Y.10, F.13, Y.14, M.23, E.118, M.120, Y.122, N.126, E.127, H.275, W.276, R.306, Q.307, K.331, P.333, F.335 Ligands: SAH.5, UNX.11 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.10, B:F.13, B:Y.122, B:E.127, B:Q.307, B:K.331, B:P.333, B:F.335 Hydrogen bonds: B:M.120, B:M.120 Water bridges: B:Y.14, B:Y.122 Salt bridges: B:E.127 pi-Stacking: B:F.13 pi-Cation interactions: B:K.331

7 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 1 residues within 4Å: Chain A: W.264 No protein-ligand interaction detected (PLIP) UNX.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.7: 3 residues within 4Å: Chain B: P.269, T.270, E.271 No protein-ligand interaction detected (PLIP) UNX.8: 1 residues within 4Å: Chain B: T.274 No protein-ligand interaction detected (PLIP) UNX.9: 1 residues within 4Å: Chain B: W.264 No protein-ligand interaction detected (PLIP) UNX.10: 1 residues within 4Å: Chain B: A.291 No protein-ligand interaction detected (PLIP) UNX.11: 1 residues within 4Å: Ligands: 7VM.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakayama, K. et al., TP-064, a potent and selective small molecule inhibitor of PRMT4 for multiple myeloma. Oncotarget (2018)

Release Date

2016-12-21

Peptides

Histone-arginine methyltransferase CARM1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histone-arginine methyltransferase CARM1

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