SMTL ID : 8c04.1

Co-soaked stabilizers for ERa - 14-3-3 interaction (884_AZ354)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

homo-dimer

Ligands

2 x PHE- PRO- ALA- TPO- VAL: ERalpha peptide(Non-covalent)

PHE-PRO-ALA-TPO-VAL.1: 17 residues within 4Å: Chain A: K.54, R.61, R.65, K.127, R.134, Y.135, G.176, L.179, N.180, V.183, E.187, I.224, L.227, N.231, L.234, W.235 Ligands: GEH.5 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:L.179, A:V.183, A:L.227, A:W.235 Hydrogen bonds: A:K.54, A:Y.135, A:N.180, A:N.180, A:N.180, A:N.231, A:N.231 Water bridges: A:S.50, A:R.61, A:R.61, A:R.61, A:R.61, A:R.61, A:K.127, A:K.127, A:Y.135 Salt bridges: A:K.54, A:K.54, A:R.61, A:K.127, A:R.134 PHE-PRO-ALA-TPO-VAL.7: 17 residues within 4Å: Chain B: K.54, R.61, R.65, K.127, R.134, Y.135, G.176, L.179, N.180, V.183, E.187, I.224, L.227, N.231, L.234, W.235 Ligands: GEH.11 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:L.179, B:V.183, B:L.227, B:W.235 Hydrogen bonds: B:K.54, B:Y.135, B:N.180, B:N.180, B:N.231, B:N.231 Water bridges: B:S.50, B:R.61, B:R.61, B:R.61, B:R.61, B:R.61, B:K.127, B:D.131, B:Y.135 Salt bridges: B:K.54, B:K.54, B:R.61, B:K.127, B:R.134

6 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.2: 1 residues within 4Å: Chain A: K.164 No protein-ligand interaction detected (PLIP) MG.3: 4 residues within 4Å: Chain A: M.6, E.7, R.8, K.37 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.7, H2O.1 MG.4: 3 residues within 4Å: Chain A: R.90, E.91, E.94 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.94, H2O.2 MG.8: 1 residues within 4Å: Chain B: K.164 No protein-ligand interaction detected (PLIP) MG.9: 4 residues within 4Å: Chain B: M.6, E.7, R.8, K.37 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.7, H2O.14 MG.10: 3 residues within 4Å: Chain B: R.90, E.91, E.94 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.94, H2O.15

2 x GEH: 2-(4-chloranylphenoxy)-2-methyl-~{N}-(2-sulfanylethyl)propanamide(Non-covalent)

GEH.5: 12 residues within 4Å: Chain A: C.47, S.50, V.51, F.124, K.127, P.172, I.173, G.176, L.223, I.224 Ligands: PHE-PRO-ALA-TPO-VAL.1, LF5.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.172, A:L.223, A:I.224 GEH.11: 12 residues within 4Å: Chain B: C.47, S.50, V.51, F.124, K.127, P.172, I.173, G.176, L.223, I.224 Ligands: PHE-PRO-ALA-TPO-VAL.7, LF5.12 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:P.172, B:L.223, B:I.224

2 x LF5: 4-chloranyl-7-propan-2-yloxy-1-benzothiophene-2-carboximidamide(Non-covalent)

LF5.6: 7 residues within 4Å: Chain A: E.19, E.44, C.47, L.48, V.51, D.220 Ligands: GEH.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.19, A:E.19 LF5.12: 7 residues within 4Å: Chain B: E.19, E.44, C.47, L.48, V.51, D.220 Ligands: GEH.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.19, B:E.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Visser, E.J. et al., From Tethered to Freestanding Stabilizers of 14-3-3 Protein-Protein Interactions through Fragment Linking. Angew.Chem.Int.Ed.Engl. (2023)

Release Date

2023-08-02

Peptides

14-3-3 protein sigma: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

14-3-3 protein sigma

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