SMTL ID : 4o6f.1

Structural Basis of Estrogen Receptor Alpha Methylation Mediated by Histone Methyltransferase SmyD2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.82 Å

Oligo State

hetero-1-1-mer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 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.2: 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.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

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

SAH.4: 15 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, N.206, H.207, Y.240, Y.258, F.260 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.19, A:R.19, A:H.207, A:H.207, A:Y.258 Water bridges: A:E.135, A:E.263 Salt bridges: A:R.19 pi-Stacking: A:F.260, A:F.260

1 x PE8: 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL(Non-covalent)

PE8.5: 9 residues within 4Å: Chain A: E.190, K.309, Y.344, Q.345, G.348, L.351, W.356, K.387 Chain B: R.9 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.309, A:K.387, B:R.9

2 x NI: NICKEL (II) ION(Non-covalent)

NI.6: 3 residues within 4Å: Chain A: C.13, G.18, R.19 No protein-ligand interaction detected (PLIP) NI.7: 1 residues within 4Å: Chain A: C.210 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.210, H2O.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, Y. et al., Structural Insights into Estrogen Receptor alpha Methylation by Histone Methyltransferase SMYD2, a Cellular Event Implicated in Estrogen Signaling Regulation. J.Mol.Biol. (2014)

Release Date

2014-03-26

Peptides

N-lysine methyltransferase SMYD2: A
Estrogen receptor: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

N-lysine methyltransferase SMYD2

Estrogen receptor

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