SMTL ID : 6mxy.1

Structure of 53BP1 tandem Tudor domains in complex with small molecule UNC3351

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

homo-dimer

Ligands

5 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 7 residues within 4Å: Chain A: K.102, M.104, A.105 Chain B: K.102, M.104, A.105 Ligands: PO4.5 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Water bridges: A:K.102, A:K.102, A:K.102, B:K.102, B:K.102, B:K.102 PO4.2: 5 residues within 4Å: Chain A: R.28, V.30, K.34, K.36, D.46 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.28, A:K.34, A:K.36 PO4.4: 5 residues within 4Å: Chain A: E.69 Chain B: R.10, D.56, K.83, R.103 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Water bridges: B:R.10, B:R.10, B:D.56, B:K.83, B:R.103, B:R.103, A:E.69 Salt bridges: B:K.83, B:R.103 Hydrogen bonds: A:E.69 PO4.5: 5 residues within 4Å: Chain A: Y.89, K.102 Chain B: Y.89, K.102 Ligands: PO4.1 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Water bridges: A:Y.89, A:K.102, A:K.102 Salt bridges: A:K.102 Hydrogen bonds: B:Y.89 PO4.6: 5 residues within 4Å: Chain B: K.14, S.17, L.48, K.50, D.51 5 PLIP interactions: 5 interactions with chain B Water bridges: B:K.14, B:S.16, B:D.51 Salt bridges: B:K.14, B:K.50

1 x K6M: N-[3-(tert-butylamino)propyl]-3-(trifluoromethyl)benzamide(Non-covalent)

K6M.3: 16 residues within 4Å: Chain A: W.15, Y.22, F.39, D.40, D.41, Y.43, M.104 Chain B: W.15, Y.22, F.39, D.40, D.41, Y.43, L.67, M.104, A.105 13 PLIP interactions: 7 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:W.15, A:Y.22, A:Y.22, A:D.41, A:Y.43, B:F.39 Hydrogen bonds: A:D.41, A:D.41, B:D.40, B:D.41, B:D.41 Water bridges: B:W.15, B:W.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cui, G. et al., An autoinhibited state of 53BP1 revealed by small molecule antagonists and protein engineering. Nat Commun (2023)

Release Date

2019-11-27

Peptides

TP53-binding protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TP53-binding protein 1

Related Entries With Identical Sequence