SMTL ID : 6fn9.1

Mono- and bivalent 14-3-3 inhibitors for characterizing supramolecular lysine-PEG interactions in proteins

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.27 Å

Oligo State

homo-dimer

Ligands

2 x DW8: [2-[2-oxidanylidene-2-[[3-[2-[2-[2-[3-oxidanylidene-3-(propylamino)propoxy]ethoxy]ethoxy]ethylcarbamoyl]phenyl]amino]ethoxy]phenyl]phosphonic acid(Non-covalent)

DW8.1: 11 residues within 4Å: Chain A: K.49, N.50, G.53, R.56, S.57, R.60, R.127, Y.128, L.172, N.173, L.220 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.172 Hydrogen bonds: A:K.49, A:G.53, A:R.56, A:R.56, A:R.127, A:R.127, A:Y.128, A:Y.128, A:Y.128 Water bridges: A:R.60, A:N.173, A:N.173 pi-Cation interactions: A:R.56 DW8.4: 11 residues within 4Å: Chain B: K.49, N.50, G.53, R.56, S.57, R.60, R.127, Y.128, L.172, N.173, L.220 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.172 Hydrogen bonds: B:K.49, B:G.53, B:R.56, B:R.56, B:R.127, B:R.127, B:Y.128 Water bridges: B:R.60, B:R.60, B:N.173, B:N.173 pi-Cation interactions: B:R.56

2 x BEZ: BENZOIC ACID(Non-covalent)

BEZ.2: 4 residues within 4Å: Chain A: F.196, M.218, Q.219, R.222 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.196, A:Q.219 Salt bridges: A:R.222 BEZ.5: 5 residues within 4Å: Chain B: F.196, I.200, M.218, Q.219, R.222 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.200, B:M.218, B:Q.219 Salt bridges: B:R.222

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: Y.82 Chain B: K.9, D.21, C.25 No protein-ligand interaction detected (PLIP) GOL.6: 3 residues within 4Å: Chain A: K.9, C.25 Chain B: Y.82 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yilmaz, E. et al., Mono- and Bivalent 14-3-3 Inhibitors for Characterizing Supramolecular "Lysine Wrapping" of Oligoethylene Glycol (OEG) Moieties in Proteins. Chemistry (2018)

Release Date

2018-07-04

Peptides

14-3-3 protein zeta/delta: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

14-3-3 protein zeta/delta

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