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SMTL ID : 8afn.1

Small molecule stabilizer (compound 1) for ERalpha and 14-3-3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.36 Å

Oligo State

homo-dimer

Ligands

2 x PHE- PRO- ALA- TPO- VAL: Estrogen receptor(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: O6C.4

23 PLIP interactions:

23 interactions with chain A

Hydrophobic interactions: A:L.179, A:V.183, A:L.227, 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:K.127
Salt bridges: A:K.54, A:K.54, A:R.61, A:K.127, A:R.134
pi-Cation interactions: A:R.65

PHE-PRO-ALA-TPO-VAL.5:

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: O6C.8

22 PLIP interactions:

22 interactions with chain B

Hydrophobic interactions: B:L.179, B:V.183, B:L.227, 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:K.127
Salt bridges: B:K.54, B:K.54, B:R.61, B:K.127, B:R.134
pi-Cation interactions: B:R.65

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

MG.2:	0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)
MG.3:	3 residues within 4Å: Chain A: R.90, E.91, E.94 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.94, H₂O.2, H₂O.9, H₂O.9
MG.6:	0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)
MG.7:	3 residues within 4Å: Chain B: R.90, E.91, E.94 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.94, H₂O.14, H₂O.21, H₂O.22

2 x O6C: 1-[2-(4-chloranylphenoxy)-2-methyl-propanoyl]-~{N}-[2-[2-(dimethylamino)ethyldisulfanyl]ethyl]piperidine-4-carboxamide(Non-covalent)

O6C.4:	13 residues within 4Å: Chain A: C.43, E.44, R.46, N.47, F.124, K.127, P.172, I.173, G.176, D.220, L.223, I.224 Ligands: PHE-PRO-ALA-TPO-VAL.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.173, A:L.223
O6C.8:	13 residues within 4Å: Chain B: C.43, E.44, R.46, N.47, F.124, K.127, P.172, I.173, G.176, D.220, L.223, I.224 Ligands: PHE-PRO-ALA-TPO-VAL.5 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.173, B:L.223

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Kenanova, D.N. et al., A Systematic Approach to the Discovery of Protein-Protein Interaction Stabilizers. Acs Cent.Sci. (2023)

Release Date

2023-04-26

Peptides

14-3-3 protein sigma: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

14-3-3 protein sigma

Toggle Identical (AB)

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