SMTL ID : 6xxc.1

Ternary complex of 14-3-3 sigma (C38N), Estrogen Related Receptor gamma (DBD) phosphopeptide, and disulfide PPI stabilizer 4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-dimer

Ligands

2 x ARG- ARG- ARG- LYS- SEP- CYS- GLN: Estrogen Related Receptor gamma phosphopeptide(Non-covalent)

ARG-ARG-ARG-LYS-SEP-CYS-GLN.1: 18 residues within 4Å: Chain A: K.54, R.61, R.65, K.127, R.134, Y.135, E.138, G.176, L.179, N.180, V.183, E.187, L.227, D.230, N.231, L.234, W.235 Ligands: O3W.6 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:L.227, A:D.230, A:L.234, A:L.234 Hydrogen bonds: A:R.61, A:R.134, A:Y.135, A:E.138, A:E.138, A:N.180, A:N.180, A:D.230, A:N.231, A:N.231 Water bridges: A:K.54, A:R.61, A:R.61, A:R.61, A:R.65, A:R.65, A:K.127, A:N.180, A:E.187, A:E.187, A:E.187, A:E.187 Salt bridges: A:R.61, A:R.134, A:E.187, A:E.187 ARG-ARG-ARG-LYS-SEP-CYS-GLN.7: 18 residues within 4Å: Chain B: K.54, R.61, R.65, K.127, R.134, Y.135, E.138, G.176, L.179, N.180, V.183, E.187, L.227, D.230, N.231, L.234, W.235 Ligands: O3W.12 30 PLIP interactions: 30 interactions with chain B Hydrophobic interactions: B:L.227, B:D.230, B:L.234, B:L.234 Hydrogen bonds: B:R.61, B:R.134, B:Y.135, B:E.138, B:N.180, B:N.180, B:D.230, B:D.230, B:N.231, B:N.231 Water bridges: B:K.54, B:R.61, B:R.61, B:R.61, B:R.65, B:R.65, B:K.127, B:N.180, B:E.187, B:E.187, B:E.187, B:E.187 Salt bridges: B:R.61, B:R.134, B:E.187, B:E.187

6 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: E.166, M.167 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.166, H2O.8, H2O.9 MG.4: 4 residues within 4Å: Chain A: E.40, E.115, A.116, G.117 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.40, A:E.40, A:E.115, H2O.7, H2O.10 MG.5: 3 residues within 4Å: Chain A: R.90, E.91, E.94 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.94, H2O.2, H2O.4, H2O.9, H2O.10 MG.8: 2 residues within 4Å: Chain B: E.166, M.167 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.166, H2O.21, H2O.22 MG.10: 4 residues within 4Å: Chain B: E.40, E.115, A.116, G.117 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.40, B:E.40, B:E.115, H2O.20, H2O.23 MG.11: 3 residues within 4Å: Chain B: R.90, E.91, E.94 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.94, H2O.16, H2O.17, H2O.23, H2O.23

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 6 residues within 4Å: Chain A: E.88, Y.89, K.92 Chain B: M.6, K.14, F.30 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain A: M.6, K.14, F.30 Chain B: E.88, Y.89, K.92 Ligand excluded by PLIP

2 x O3W: ~{N}-methyl-~{N}-(2-sulfanylethyl)benzamide(Non-covalent)

O3W.6: 12 residues within 4Å: Chain A: S.50, F.124, K.127, P.172, I.173, G.176, L.179, L.223, I.224, L.227 Ligands: ARG-ARG-ARG-LYS-SEP-CYS-GLN.1, ARG-ARG-ARG-LYS-SEP-CYS-GLN.1 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.124 O3W.12: 12 residues within 4Å: Chain B: S.50, F.124, K.127, P.172, I.173, G.176, L.179, L.223, I.224, L.227 Ligands: ARG-ARG-ARG-LYS-SEP-CYS-GLN.7, ARG-ARG-ARG-LYS-SEP-CYS-GLN.7 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sijbesma, E. et al., Fluorescence Anisotropy-Based Tethering for Discovery of Protein-Protein Interaction Stabilizers. Acs Chem.Biol. (2020)

Release Date

2020-11-18

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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