SMTL ID : 6va5.1

Tudor Domain of Tumor suppressor p53BP1 with MFP-4184

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.28 Å

Oligo State

monomer

Ligands

1 x QSS: 2-(4-methylpiperazin-1-yl)aniline(Non-covalent)

QSS.1: 6 residues within 4Å: Chain A: W.14, N.17, Y.21, F.38, D.40, Y.42 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.14, A:N.17 Salt bridges: A:D.40 pi-Cation interactions: A:W.14, A:W.14

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: K.13, S.16, N.17 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.17 Water bridges: A:K.13

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: R.9, E.86, L.87, R.102 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:L.87 Water bridges: A:R.9, A:R.9, A:D.39, A:R.102, A:R.102 Salt bridges: A:R.9, A:R.102 SO4.4: 4 residues within 4Å: Chain A: K.49, D.50, N.113, R.116 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.113 Water bridges: A:R.116, A:R.116 Salt bridges: A:K.49, A:R.116 SO4.5: 4 residues within 4Å: Chain A: T.61, R.114, L.115, Q.118 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.118 Salt bridges: A:R.114 SO4.6: 3 residues within 4Å: Chain A: R.81, K.82, E.83 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.82, A:E.83

3 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.7: 1 residues within 4Å: Chain A: R.27 No protein-ligand interaction detected (PLIP) UNX.8: 2 residues within 4Å: Chain A: R.81, W.99 No protein-ligand interaction detected (PLIP) UNX.9: 3 residues within 4Å: Chain A: T.26, K.35, E.43 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zeng, H. et al., Tudor Domain of Tumor suppressor p53BP1 with MFP-4184. to be published

Release Date

2020-04-29

Peptides

TP53-binding protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

TP53-binding protein 1

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