SMTL ID : 7mem.1

CryoEM structure of monoclonal Fab 045-09 2B05 binding the lateral patch of influenza virus H1 HA

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-mer

Ligands

3 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.1: 3 residues within 4Å: Chain A: T.19, K.26, N.27 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.27 Hydrogen bonds: A:N.27 NAG-FUC.3: 3 residues within 4Å: Chain E: T.19, K.26, N.27 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:N.27 Hydrogen bonds: E:N.27 NAG-FUC.5: 3 residues within 4Å: Chain I: T.19, K.26, N.27 1 PLIP interactions: 1 interactions with chain I Hydrophobic interactions: I:N.27 Hydrogen bonds: I:N.27

3 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: 10 residues within 4Å: Chain A: K.58, N.68, P.69, E.70, D.90, N.91, C.94, C.140, P.141, R.225 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 10 residues within 4Å: Chain E: K.58, N.68, P.69, E.70, D.90, N.91, C.94, C.140, P.141, R.225 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 10 residues within 4Å: Chain I: K.58, N.68, P.69, E.70, D.90, N.91, C.94, C.140, P.141, R.225 No protein-ligand interaction detected (PLIP)

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

NAG.7: 3 residues within 4Å: Chain A: G.50, N.280 Ligands: NAG.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.280 NAG.8: 4 residues within 4Å: Chain A: N.280, N.291, T.292 Ligands: NAG.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.292 Hydrogen bonds: A:N.291, A:N.291 NAG.9: 3 residues within 4Å: Chain E: G.50, N.280 Ligands: NAG.10 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.280 NAG.10: 4 residues within 4Å: Chain E: N.280, N.291, T.292 Ligands: NAG.9 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:T.292 Hydrogen bonds: E:N.291, E:N.291 NAG.11: 3 residues within 4Å: Chain I: G.50, N.280 Ligands: NAG.12 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.280 NAG.12: 4 residues within 4Å: Chain I: N.280, N.291, T.292 Ligands: NAG.11 3 PLIP interactions: 3 interactions with chain I Hydrophobic interactions: I:T.292 Hydrogen bonds: I:N.291, I:N.291

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guthmiller, J.J. et al., First exposure to the pandemic H1N1 virus induced broadly neutralizing antibodies targeting hemagglutinin head epitopes. Sci Transl Med (2021)

Release Date

2021-07-28

Peptides

Hemagglutinin HA1 chain: AEI
Light chain of monoclonal antibody 045-09 2B05: BFJ
Heavy chain of monoclonal antibody 045-09 2B05: CGK
Hemagglutinin HA2 chain: DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

E
C

I
F

B
L

F
J

J
K

C
H

G
G

K
I

D
D

H
A

L
B

Hemagglutinin HA1 chain

Light chain of monoclonal antibody 045-09 2B05

Heavy chain of monoclonal antibody 045-09 2B05

Hemagglutinin HA2 chain

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