SMTL ID : 9cuw.1

Crystal Structure of SETDB1 Tudor domain in complex with UNC100013

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

monomer

Ligands

1 x 01: (2E)-4-(dimethylamino)-N-(4-{[6-(dimethylamino)hexyl]amino}-2-{[5-(dimethylamino)pentyl]amino}quinazolin-6-yl)but-2-enamide

01.1: 16 residues within 4Å: Chain A: Y.90, D.92, Y.99, F.119, D.121, Y.123, W.180, W.185, R.198, L.200, F.201, D.204, K.205, R.206, C.207, E.208 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.123, A:F.201, A:E.208 Hydrogen bonds: A:D.92, A:R.206, A:C.207, A:C.207 Water bridges: A:R.198 Salt bridges: A:D.121, A:D.204 pi-Cation interactions: A:Y.90, A:R.206

4 x EDO: 1,2-ETHANEDIOL

EDO.2: 1 residues within 4Å: Chain A: Y.15 No protein-ligand interaction detected (PLIP) EDO.3: 4 residues within 4Å: Chain A: A.77, D.78, L.80, Y.81 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.78 EDO.4: 6 residues within 4Å: Chain A: F.118, G.122, A.124, F.154, Y.211, S.214 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.123, A:S.214 Water bridges: A:Y.211 EDO.5: 4 residues within 4Å: Chain A: E.179, W.180, E.181, R.216 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.179, A:E.181 Water bridges: A:G.182

4 x UNX: UNKNOWN ATOM OR ION

UNX.6: 3 residues within 4Å: Chain A: V.168, L.169, P.219 No protein-ligand interaction detected (PLIP) UNX.7: 4 residues within 4Å: Chain A: Y.90, A.124, S.125, W.209 No protein-ligand interaction detected (PLIP) UNX.8: 2 residues within 4Å: Chain A: W.185, K.186 No protein-ligand interaction detected (PLIP) UNX.9: 3 residues within 4Å: Chain A: K.110, G.194, S.195 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Silva, M. et al., Crystal Structure of SETDB1 Tudor domain in complex with UNC100013. To be published

Release Date

2024-10-02

Peptides

Histone-lysine N-methyltransferase SETDB1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone-lysine N-methyltransferase SETDB1

Related Entries With Identical Sequence