SMTL ID : 3tg5.1

Structure of SMYD2 in complex with p53 and SAH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: P.211, I.214, Y.374, P.375, S.378, L.379, N.380 Chain B: K.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.379, A:N.380, A:N.380

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

SAH.2: 16 residues within 4Å: Chain A: G.16, K.17, G.18, R.19, E.135, H.137, C.181, N.182, A.203, L.204, M.205, N.206, H.207, Y.240, Y.258, F.260 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:R.19, A:R.19, A:E.135, A:H.137, A:N.206, A:H.207, A:H.207 Water bridges: A:R.19, A:E.135, A:E.263, A:E.263 Salt bridges: A:R.19 pi-Stacking: A:F.260, A:F.260

3 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.209, C.262, C.264, C.267 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.209, A:C.262, A:C.264, A:C.267 ZN.4: 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.5: 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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, L. et al., Structure of human SMYD2 reveals the basis of p53 tumor suppressor methylation. J.Biol.Chem. (2011)

Release Date

2011-08-31

Peptides

N-lysine methyltransferase SMYD2: A
Cellular tumor antigen p53: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

N-lysine methyltransferase SMYD2

Cellular tumor antigen p53

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