SMTL ID : 8aap.1

Crystal structure of the PDZ tandem of syntenin in complex with compound SYNTi

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

homo-dimer

Ligands

2 x LLV: (2S)-2-[[(2S)-2-(6-bromanyl-3-oxidanylidene-1H-isoindol-2-yl)-3-[4-(5-ethanoyl-2-fluoranyl-phenyl)phenyl]propanoyl]amino]propanoic acid(Non-covalent)

LLV.1: 13 residues within 4Å: Chain A: D.97, H.101, V.102, G.103, F.104, I.105, F.106, D.117, S.118, D.144, S.145, A.148, L.151 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:H.101, A:V.102, A:F.104, A:I.105, A:D.144, A:A.148, A:L.151 Hydrogen bonds: A:V.102, A:G.103, A:F.104, A:F.104, A:F.106 Salt bridges: A:H.101 pi-Stacking: A:H.101, A:F.106, A:F.106 LLV.2: 13 residues within 4Å: Chain B: D.97, H.101, V.102, G.103, F.104, I.105, F.106, V.115, S.118, D.144, S.145, A.148, L.151 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:H.101, B:V.102, B:F.104, B:I.105, B:V.115, B:V.115, B:D.144, B:A.148, B:L.151 Hydrogen bonds: B:H.101, B:V.102, B:G.103, B:F.104, B:F.104, B:F.106 Salt bridges: B:H.101 pi-Stacking: B:H.101, B:F.106, B:F.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hoffer, L. et al., Discovery of a PDZ Domain Inhibitor Targeting the Syndecan/Syntenin Protein-Protein Interaction: A Semi-Automated "Hit Identification-to-Optimization" Approach. J.Med.Chem. (2023)

Release Date

2023-04-26

Peptides

Syntenin-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Syntenin-1

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