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

Crystal structure of catalytic domain of GLP with MS012

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.66 Å

Oligo State

monomer

Ligands

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 17 residues within 4Å: Chain A: M.157, G.158, W.159, S.193, Y.194, R.218, F.219, I.220, N.221, H.222, Y.263, F.267, F.275, S.276, C.277, R.278, C.279 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:W.159, A:S.193, A:Y.194, A:Y.194, A:N.221, A:N.221, A:H.222, A:H.222, A:R.278 Water bridges: A:S.193, A:R.278, A:R.278

1 x 7KZ: N4-(1-methylpiperidin-4-yl)-N2-hexyl-6,7-dimethoxyquinazoline-2,4-diamine(Non-covalent)

7KZ.2: 12 residues within 4Å: Chain A: A.186, D.187, R.189, D.192, L.195, D.197, C.207, Y.263, R.266, F.267, I.270, K.271 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.195, A:I.270 Hydrogen bonds: A:D.192, A:D.192 Water bridges: A:F.267 Salt bridges: A:D.187, A:D.192

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 6 residues within 4Å: Chain A: C.83, C.96, C.126, C.130 Ligands: ZN.4, ZN.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.83, A:C.96, A:C.126, A:C.130 ZN.4: 7 residues within 4Å: Chain A: C.83, C.89, C.126, C.132, C.136 Ligands: ZN.3, ZN.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.89, A:C.126, A:C.132, A:C.136 ZN.5: 6 residues within 4Å: Chain A: C.83, C.85, C.89, C.94 Ligands: ZN.3, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.83, A:C.85, A:C.89, A:C.94 ZN.6: 4 residues within 4Å: Chain A: C.224, C.277, C.279, C.284 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.224, A:C.277, A:C.279, A:C.284

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 4 residues within 4Å: Chain A: R.139, V.140, N.143, R.146 Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 8 residues within 4Å: Chain A: N.65, L.180, L.198, H.237, F.242, P.243, R.244 Ligands: UNX.9 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.65, A:H.237, A:P.243 Water bridges: A:N.65, A:R.244, A:R.244

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

UNX.9: 2 residues within 4Å: Chain A: R.75 Ligands: GOL.8 No protein-ligand interaction detected (PLIP) UNX.10: 1 residues within 4Å: Chain A: N.65 No protein-ligand interaction detected (PLIP) UNX.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.12: 1 residues within 4Å: Chain A: W.133 No protein-ligand interaction detected (PLIP) UNX.13: 4 residues within 4Å: Chain A: R.155, D.156, M.157, G.158 No protein-ligand interaction detected (PLIP) UNX.14: 2 residues within 4Å: Chain A: G.272, K.273 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiong, Y. et al., Discovery of Potent and Selective Inhibitors for G9a-Like Protein (GLP) Lysine Methyltransferase. J. Med. Chem. (2017)

Release Date

2017-02-01

Peptides

Histone-lysine N-methyltransferase EHMT1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone-lysine N-methyltransferase EHMT1

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