SMTL ID : 8ut8.1

CryoEM structure of A/Shanghai/1/2013 H7 in complex with polyclonal Fab from mice immunized with H7 stem nanoparticles-15 days post-immunization

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 2 residues within 4Å: Chain B: E.76, N.86 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 6 residues within 4Å: Chain C: R.291 Chain D: E.73, K.79, G.82, N.83, N.86 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:E.73 NAG-NAG.3: 4 residues within 4Å: Chain F: K.79, G.82, N.83, N.86 No protein-ligand interaction detected (PLIP)

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

NAG.4: 2 residues within 4Å: Chain A: N.28, T.309 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain A: K.160, N.161, N.231 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:K.160 NAG.6: 4 residues within 4Å: Chain B: A.154, R.157, N.158, T.160 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:T.160 Hydrogen bonds: B:R.157, B:R.157 NAG.7: 2 residues within 4Å: Chain C: N.12, G.13 No protein-ligand interaction detected (PLIP) NAG.8: 1 residues within 4Å: Chain C: N.28 No protein-ligand interaction detected (PLIP) NAG.9: 4 residues within 4Å: Chain D: D.151, A.154, S.155, N.158 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:A.154 Hydrogen bonds: D:N.158 NAG.10: 2 residues within 4Å: Chain E: V.27, N.28 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain E: P.230, N.231 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:P.230 Hydrogen bonds: E:N.231 NAG.12: 3 residues within 4Å: Chain F: A.154, N.158, T.160 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:N.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ray, R. et al., Eliciting a single amino acid change by vaccination generates antibody protection against group 1 and group 2 influenza A viruses. Immunity (2024)

Release Date

2024-05-08

Peptides

Hemagglutinin HA1 chain: ACE
Hemagglutinin HA2 chain: BDF
H7D15 pFab HC Fv_polyA: G
H7D15 pFab LC Fv_polyA: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

G
G

H
H

Hemagglutinin HA1 chain

Hemagglutinin HA2 chain

H7D15 pFab HC Fv_polyA

H7D15 pFab LC Fv_polyA

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