SMTL ID : 5tfp.1

Crystal Structure of the SETDB2 Amino Terminal Domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: N.46, I.50 Chain B: D.7, A.8 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:A.8, A:N.46 GOL.2: 7 residues within 4Å: Chain A: L.15, E.16, G.19, K.20, V.21, D.22 Ligands: GOL.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.16, A:G.19, A:V.21, A:D.22, A:D.22 Water bridges: A:F.23 GOL.3: 5 residues within 4Å: Chain A: K.47, E.48, Q.51 Ligands: GOL.5, GOL.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.47 GOL.4: 3 residues within 4Å: Chain A: Q.37, K.40, D.41 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.41 GOL.5: 6 residues within 4Å: Chain A: V.31, S.34, L.35, E.48, Q.51 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.34, A:S.34, A:Q.51, A:Q.51 GOL.6: 4 residues within 4Å: Chain A: E.16, D.17, G.19 Ligands: GOL.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.17 GOL.8: 6 residues within 4Å: Chain A: N.63 Chain B: S.34, L.35, K.38, E.48, Q.51 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.34, B:S.34, B:K.38, B:E.48, B:Q.51, B:Q.51 GOL.9: 4 residues within 4Å: Chain B: Q.37, K.38, D.41, S.43 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.37, B:D.41, B:D.41, B:S.43 Water bridges: B:S.34 GOL.10: 7 residues within 4Å: Chain A: Q.51 Chain B: N.57, E.58, A.59, T.60, I.61 Ligands: GOL.3 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.51, B:N.57, B:E.58

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.7: 7 residues within 4Å: Chain A: K.40 Chain B: L.15, E.16, G.19, K.20, V.21, D.22 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Salt bridges: A:K.40 Hydrogen bonds: B:E.16, B:E.16, B:E.16, B:V.21, B:D.22 Water bridges: B:F.23

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khorasanizadeh, S. et al., Identification of a helical dimerization domain in SETDB2 lysine methyltransferase. To Be Published

Release Date

2017-10-11

Peptides

Histone-lysine N-methyltransferase SETDB2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histone-lysine N-methyltransferase SETDB2