SMTL ID : 8vee.1

Cryo-EM structure of antibody T5-1E08 in complex with H7N9 Influenza Hemagglutinin Trimer (A/Shanghai/2/13)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-mer

Ligands

9 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG.1: 6 residues within 4Å: Chain A: N.46, A.47, T.327 Chain B: G.108, G.112, N.113 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: R.309, E.411, N.418, N.421 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.309 NAG-NAG.3: 5 residues within 4Å: Chain A: D.486, A.489, S.490, N.493, T.495 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 6 residues within 4Å: Chain D: N.46, A.47, T.327 Chain E: G.108, G.112, N.113 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain D: R.309, E.411, N.418, N.421 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:R.309 NAG-NAG.6: 8 residues within 4Å: Chain D: D.486, A.489, S.490, N.493, T.495 Chain F: N.92, S.93, Y.94 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.486 NAG-NAG.7: 5 residues within 4Å: Chain G: N.46, T.327 Chain H: G.108, G.112, N.113 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:N.113 NAG-NAG.8: 4 residues within 4Å: Chain G: R.309, E.411, N.418, N.421 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:R.309 NAG-NAG.9: 8 residues within 4Å: Chain G: D.486, A.489, S.490, N.493, T.495 Chain I: N.92, S.93, Y.94 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:D.486

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose

NAG.10: 6 residues within 4Å: Chain A: K.178, N.179, T.180, N.249, D.250, T.251 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.180, A:N.249, A:T.251 NAG.11: 5 residues within 4Å: Chain D: K.178, T.180, N.249, D.250, T.251 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.180, D:N.249, D:T.251 NAG.12: 6 residues within 4Å: Chain G: K.178, N.179, T.180, N.249, D.250, T.251 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:T.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mantus, G.E. et al., Distinct binding modes drive the broad neutralization profile of two persistent influenza hemagglutinin stem-specific antibody lineages. Structure (2025)

Release Date

2025-03-19

Peptides

Hemagglutinin: ADG
T5-1E08 Fab heavy chain: BEH
T5-1E08 Fab light chain: CFI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
C

G
E

B
H

E
G

H
J

C
L

F
I

I
K

Hemagglutinin

T5-1E08 Fab heavy chain

T5-1E08 Fab light chain

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