SMTL ID : 6eae.1

CRYSTAL STRUCTURE OF HUMAN RESPIRATORY SYNCYTIAL VIRUS FUSION GLYCOPROTEIN INHIBITOR ESCAPE VARIANT L141W STABILIZED IN THE PREFUSION STATE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: R.106 Chain B: F.137, R.339, Q.354 Ligands: NHE.13 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Salt bridges: A:R.106, B:R.339 Hydrogen bonds: B:F.137, B:Q.354 SO4.2: 3 residues within 4Å: Chain A: L.273, N.277, R.364 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.277 Salt bridges: A:R.364 SO4.3: 4 residues within 4Å: Chain A: S.443, K.445, G.464, S.466 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.443, A:S.466 SO4.4: 2 residues within 4Å: Chain A: T.103, N.104 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.104, A:N.104 SO4.5: 4 residues within 4Å: Chain A: V.192, L.193, D.194, K.226 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.194 Salt bridges: A:K.226 SO4.8: 5 residues within 4Å: Chain B: R.106 Chain C: F.137, R.339, Q.354 Ligands: NHE.20 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C Salt bridges: B:R.106, C:R.339 Hydrogen bonds: C:F.137, C:Q.354 SO4.9: 3 residues within 4Å: Chain B: L.273, N.277, R.364 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.277 Salt bridges: B:R.364 SO4.10: 4 residues within 4Å: Chain B: S.443, K.445, G.464, S.466 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.443, B:S.466 SO4.11: 2 residues within 4Å: Chain B: T.103, N.104 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.104, B:N.104 SO4.12: 4 residues within 4Å: Chain B: V.192, L.193, D.194, K.226 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.194 Salt bridges: B:K.226 SO4.15: 5 residues within 4Å: Chain A: F.137, R.339, Q.354 Chain C: R.106 Ligands: NHE.6 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A Salt bridges: C:R.106, A:R.339 Hydrogen bonds: A:F.137, A:Q.354 SO4.16: 3 residues within 4Å: Chain C: L.273, N.277, R.364 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.277 Salt bridges: C:R.364 SO4.17: 4 residues within 4Å: Chain C: S.443, K.445, G.464, S.466 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.443, C:S.466 SO4.18: 2 residues within 4Å: Chain C: T.103, N.104 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.104, C:N.104 SO4.19: 4 residues within 4Å: Chain C: V.192, L.193, D.194, K.226 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.194 Salt bridges: C:K.226

6 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.6: 8 residues within 4Å: Chain A: F.137, G.139, F.140, Q.354 Chain C: F.140 Ligands: NHE.13, SO4.15, NHE.20 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:F.137, A:F.140, C:F.140 Hydrogen bonds: A:G.139, A:F.140, A:Q.354 NHE.7: 7 residues within 4Å: Chain A: F.387, F.477, Y.478, D.479, N.496, I.499, L.503 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.387, A:F.477, A:Y.478 Hydrogen bonds: A:D.479 NHE.13: 8 residues within 4Å: Chain A: F.140 Chain B: F.137, G.139, F.140, Q.354 Ligands: SO4.1, NHE.6, NHE.20 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.137, B:F.140, A:F.140 Hydrogen bonds: B:G.139, B:F.140, B:Q.354 NHE.14: 7 residues within 4Å: Chain B: F.387, F.477, Y.478, D.479, N.496, I.499, L.503 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.387, B:F.477, B:Y.478 Hydrogen bonds: B:D.479 NHE.20: 8 residues within 4Å: Chain B: F.140 Chain C: F.137, G.139, F.140, Q.354 Ligands: NHE.6, SO4.8, NHE.13 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:F.137, C:F.140, B:F.140 Hydrogen bonds: C:G.139, C:F.140, C:Q.354 NHE.21: 7 residues within 4Å: Chain C: F.387, F.477, Y.478, D.479, N.496, I.499, L.503 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:F.387, C:F.477, C:Y.478 Hydrogen bonds: C:D.479

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Battles, M.B. et al., Structural Basis for Respiratory Syncytial Virus Fusion Inhibitor Resistance. To be published

Release Date

2019-08-07

Peptides

Fusion glycoprotein F0: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
F

C
F

Fusion glycoprotein F0