SMTL ID : 9bjm.1

Crystal Structure of Inhibitor 5c in Complex with Prefusion RSV F Glycoprotein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-trimer

Ligands

3 x 01: 1'-{[5-chloro-1-(4,4,4-trifluorobutyl)-1H-1,3-benzimidazol-2-yl]methyl}-1-(methanesulfonyl)spiro[azetidine-3,3'-indol]-2'(1'H)-one

01.1: 13 residues within 4Å: Chain A: F.137, F.140, M.396, T.397, D.486, F.488 Chain B: F.137, F.488 Chain C: F.140, F.488, D.489 Ligands: 01.2, 01.3 15 PLIP interactions: 4 interactions with chain C, 8 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: C:F.140, C:D.489, A:F.488, A:F.488, A:F.488, A:F.488, A:F.488, B:F.488 pi-Stacking: C:F.140, C:F.488, A:F.140, B:F.488 Water bridges: A:F.140, A:F.488 pi-Cation interactions: B:F.488 01.2: 13 residues within 4Å: Chain A: F.140, F.488, D.489 Chain B: F.137, F.140, M.396, T.397, D.486, F.488 Chain C: F.137, F.488 Ligands: 01.1, 01.3 15 PLIP interactions: 4 interactions with chain A, 3 interactions with chain C, 8 interactions with chain B Hydrophobic interactions: A:F.140, A:D.489, C:F.488, B:F.488, B:F.488, B:F.488, B:F.488, B:F.488 pi-Stacking: A:F.140, A:F.488, C:F.488, B:F.140 pi-Cation interactions: C:F.488 Water bridges: B:F.140, B:F.488 01.3: 13 residues within 4Å: Chain A: F.137, F.488 Chain B: F.140, F.488, D.489 Chain C: F.137, F.140, M.396, T.397, D.486, F.488 Ligands: 01.1, 01.2 15 PLIP interactions: 8 interactions with chain C, 3 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: C:F.488, C:F.488, C:F.488, C:F.488, C:F.488, A:F.488, B:F.140, B:D.489 Water bridges: C:F.140, C:F.488 pi-Stacking: C:F.140, A:F.488, B:F.140, B:F.488 pi-Cation interactions: A:F.488

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kesteleyn, B. et al., Spiro-Azetidine Oxindoles as Long-Acting Injectables for Pre-Exposure Prophylaxis against Respiratory Syncytial Virus Infections. J.Med.Chem. (2024)

Release Date

2024-07-10

Peptides

Prefusion RSV F (DS-CAV1),Envelope glycoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Prefusion RSV F (DS-CAV1),Envelope glycoprotein

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