SMTL ID : 5lsy.1

Structure of the Epigenetic Oncogene MMSET and inhibition by N-Alkyl Sinefungin Derivatives

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.83, C.85, C.100, C.104 Ligands: ZN.2, SCN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.83, A:C.85, A:C.100, A:C.104 ZN.2: 6 residues within 4Å: Chain A: C.100, C.113, C.117, C.123 Ligands: ZN.1, SCN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.100, A:C.113, A:C.117, A:C.123 ZN.3: 5 residues within 4Å: Chain A: C.215, C.262, C.264, C.269, R.270 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.215, A:C.262, A:C.264, A:C.269

1 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.4: 10 residues within 4Å: Chain A: M.81, Q.82, C.83, C.100, N.106, C.113, C.117, P.118 Ligands: ZN.1, ZN.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.83, A:N.106

1 x 76M: [(2~{S},5~{R})-1-[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]-5-azaniumyl-6-oxidanyl-6-oxidanylidene-hexan-2-yl]-(2-methylpropyl)azanium(Non-covalent)

76M.5: 25 residues within 4Å: Chain A: K.144, G.145, W.146, Y.163, I.186, H.187, Y.188, Y.189, F.190, M.191, S.208, R.209, F.210, M.211, N.212, H.213, F.234, F.248, Y.250, Q.253, Q.260, K.261, C.262, F.263, C.264 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:Y.163, A:H.187, A:Y.189, A:M.211, A:F.234, A:F.248, A:Y.250 Hydrogen bonds: A:K.144, A:W.146, A:W.146, A:H.187, A:Y.188, A:Y.188, A:M.211, A:N.212, A:H.213, A:H.213, A:Q.253, A:F.263 Water bridges: A:Q.260, A:Q.260 Salt bridges: A:H.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tisi, D. et al., Structure of the Epigenetic Oncogene MMSET and Inhibition by N-Alkyl Sinefungin Derivatives. ACS Chem. Biol. (2016)

Release Date

2016-10-12

Peptides

Histone-lysine N-methyltransferase SETD2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone-lysine N-methyltransferase SETD2

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