SMTL ID : 8dg8.1

Cryo-EM Structure of HPIV3 prefusion F trimer in complex with 3x1 Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-1-1-mer

Ligands

9 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 3 residues within 4Å: Chain A: N.220, T.222, L.238 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.222, A:L.238 Hydrogen bonds: A:N.220 NAG.2: 3 residues within 4Å: Chain A: S.336, N.341, Q.344 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.344 Hydrogen bonds: A:N.341 NAG.3: 3 residues within 4Å: Chain A: Q.344, T.426, N.428 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.343, A:S.343 NAG.4: 5 residues within 4Å: Chain A: R.59 Chain D: N.220, E.223, I.235, L.238 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain D Hydrogen bonds: A:R.59, D:E.223 Hydrophobic interactions: D:I.235, D:L.238 NAG.5: 3 residues within 4Å: Chain D: H.332, N.341, Q.344 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.344, D:Q.344 NAG.6: 3 residues within 4Å: Chain D: Q.344, T.426, N.428 No protein-ligand interaction detected (PLIP) NAG.7: 3 residues within 4Å: Chain E: N.220, T.222, L.238 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:L.238 NAG.8: 3 residues within 4Å: Chain E: H.332, N.341, Q.344 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Q.344 NAG.9: 2 residues within 4Å: Chain E: S.343, N.428 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.428

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Caban, M. et al., Cross-protective antibodies against common endemic respiratory viruses. Nat Commun (2023)

Release Date

2023-02-22

Peptides

Fusion glycoprotein F0: ADE
3x1 monoclonal antibody, VH region: B
3x1 monoclonal antibody, VL region: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

D
A

E
C

B
H

C
L

Fusion glycoprotein F0

3x1 monoclonal antibody, VH region

3x1 monoclonal antibody, VL region

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