SMTL ID : 3n71.1

Crystal structure of cardiac specific histone methyltransferase SmyD1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x SFG: SINEFUNGIN(Non-covalent)

SFG.1: 13 residues within 4Å: Chain A: K.17, R.19, Q.133, H.135, N.180, G.202, L.203, V.204, N.205, H.206, Y.252, Y.270, F.272 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:R.19, A:R.19, A:Q.133, A:G.202, A:N.205, A:N.205, A:H.206, A:H.206, A:Y.270 Salt bridges: A:R.19 pi-Stacking: A:F.272, A:F.272

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 7 residues within 4Å: Chain A: V.114, T.119, G.120, D.130, F.165, S.166, Y.169 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.120, A:S.166 Water bridges: A:Q.163

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: F.44, D.45, S.46, E.102 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.46 GOL.4: 3 residues within 4Å: Chain A: L.47, R.58, Q.191 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.58, A:R.58, A:Q.191, A:Q.191

3 x ZN: ZINC ION(Non-covalent)

ZN.5: 4 residues within 4Å: Chain A: C.52, C.55, C.74, C.78 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.52, A:C.55, A:C.74, A:C.78 ZN.6: 4 residues within 4Å: Chain A: C.65, C.68, H.86, C.90 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.65, A:C.68, A:H.86, A:C.90 ZN.7: 5 residues within 4Å: Chain A: C.208, R.262, C.274, C.276, C.279 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.208, A:C.274, A:C.276, A:C.279

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sirinupong, N. et al., Crystal Structure of Cardiac-specific Histone Methyltransferase SmyD1 Reveals Unusual Active Site Architecture. J.Biol.Chem. (2010)

Release Date

2010-10-13

Peptides

Histone lysine methyltransferase SmyD1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone lysine methyltransferase SmyD1