SMTL ID : 4h12.1

The crystal structure of methyltransferase domain of human SET domain-containing protein 2 in complex with S-adenosyl-L-homocysteine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.66, C.68, C.83, C.87 Ligands: ZN.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.66, A:C.68, A:C.83, A:C.87 ZN.2: 5 residues within 4Å: Chain A: C.83, C.96, C.100, C.106 Ligands: ZN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.83, A:C.96, A:C.100, A:C.106 ZN.3: 4 residues within 4Å: Chain A: C.198, C.245, C.247, C.252 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.198, A:C.245, A:C.247, A:C.252

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

SAH.4: 20 residues within 4Å: Chain A: K.127, G.128, W.129, I.169, H.170, Y.171, Y.172, R.192, F.193, M.194, N.195, H.196, Y.233, R.237, Q.243, K.244, C.245, F.246, C.247, L.256 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:K.127, A:W.129, A:W.129, A:Y.171, A:Y.171, A:N.195, A:H.196, A:H.196, A:Q.243, A:Q.243, A:F.246 Water bridges: A:R.192 Salt bridges: A:H.170

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

CL.5: 4 residues within 4Å: Chain A: T.124, E.125, K.126, K.127 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, W. et al., Sinefungin Derivatives as Inhibitors and Structure Probes of Protein Lysine Methyltransferase SETD2. J.Am.Chem.Soc. (2012)

Release Date

2012-10-03

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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