SMTL ID : 7kqd.1

Prefusion RSV F Bound to RV521

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.94 Å

Oligo State

homo-trimer

Ligands

3 x WVA: 1'-{[5-(aminomethyl)-1-(4,4,4-trifluorobutyl)-1H-benzimidazol-2-yl]methyl}-6'-fluorospiro[cyclopropane-1,3'-indol]-2'(1'H)-one(Non-covalent)

WVA.1: 13 residues within 4Å: Chain A: F.140, F.488, D.489 Chain B: F.137, M.396, T.397, S.398, D.486, F.488 Chain C: F.140, F.488 Ligands: WVA.8, WVA.15 13 PLIP interactions: 5 interactions with chain C, 4 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: C:F.140, C:F.140, C:F.140, C:F.488, C:F.488, A:F.140, A:F.488, A:F.488, A:D.489, B:F.488, B:F.488 Hydrogen bonds: B:E.487 pi-Stacking: B:F.488 WVA.8: 13 residues within 4Å: Chain A: F.140, F.488 Chain B: F.140, F.488, D.489 Chain C: F.137, M.396, T.397, S.398, D.486, F.488 Ligands: WVA.1, WVA.15 14 PLIP interactions: 4 interactions with chain C, 5 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: C:F.488, C:F.488, A:F.140, A:F.140, A:F.140, A:F.488, A:F.488, B:F.140, B:F.488, B:F.488, B:D.489 Hydrogen bonds: C:E.487, B:D.489 pi-Stacking: C:F.488 WVA.15: 13 residues within 4Å: Chain A: F.137, M.396, T.397, S.398, D.486, F.488 Chain B: F.140, F.488 Chain C: F.140, F.488, D.489 Ligands: WVA.1, WVA.8 14 PLIP interactions: 5 interactions with chain C, 5 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: C:F.140, C:F.488, C:F.488, C:D.489, B:F.140, B:F.140, B:F.140, B:F.488, B:F.488, A:F.488, A:F.488 Hydrogen bonds: C:D.489, A:E.487 pi-Stacking: A:F.488

18 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: S.443, K.445, G.464, K.465, S.466 Ligand excluded by PLIP SO4.3: 8 residues within 4Å: Chain A: L.456, Y.457, Y.458 Chain C: R.49, W.52, S.146, A.147, M.370 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: N.444, K.445, G.446, K.461 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: F.137, R.339, P.353 Ligand excluded by PLIP SO4.6: 5 residues within 4Å: Chain A: L.273, N.276, N.277, R.364 Chain C: Q.98 Ligand excluded by PLIP SO4.7: 4 residues within 4Å: Chain A: V.192, L.193, D.194, K.226 Ligand excluded by PLIP SO4.9: 5 residues within 4Å: Chain B: S.443, K.445, G.464, K.465, S.466 Ligand excluded by PLIP SO4.10: 8 residues within 4Å: Chain A: R.49, W.52, S.146, A.147, M.370 Chain B: L.456, Y.457, Y.458 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain B: N.444, K.445, G.446, K.461 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain B: F.137, R.339, P.353 Ligand excluded by PLIP SO4.13: 5 residues within 4Å: Chain A: Q.98 Chain B: L.273, N.276, N.277, R.364 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain B: V.192, L.193, D.194, K.226 Ligand excluded by PLIP SO4.16: 5 residues within 4Å: Chain C: S.443, K.445, G.464, K.465, S.466 Ligand excluded by PLIP SO4.17: 8 residues within 4Å: Chain B: R.49, W.52, S.146, A.147, M.370 Chain C: L.456, Y.457, Y.458 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain C: N.444, K.445, G.446, K.461 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain C: F.137, R.339, P.353 Ligand excluded by PLIP SO4.20: 5 residues within 4Å: Chain B: Q.98 Chain C: L.273, N.276, N.277, R.364 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain C: V.192, L.193, D.194, K.226 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cockerill, G.S. et al., Discovery of Sisunatovir (RV521), an Inhibitor of Respiratory Syncytial Virus Fusion. J.Med.Chem. (2021)

Release Date

2021-04-21

Peptides

Fusion glycoprotein F0: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
F

C
F

Fusion glycoprotein F0

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