SMTL ID : 4mhj.1 (9 other biounits)

Crystal structure of Fab H5M9 in complex with influenza virus hemagglutinin from A/goose/Guangdong/1/96 (H5N1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 6.98 Å

Oligo State

hetero-3-3-3-3-mer

Ligands

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.1: 5 residues within 4Å: Chain A: N.169, N.240, D.241, A.242 Chain E: P.221 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN.2: 2 residues within 4Å: Chain C: Q.19, N.27 No protein-ligand interaction detected (PLIP)

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

NAG-NAG.3: 4 residues within 4Å: Chain E: N.169, N.240, D.241, A.242 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA.4: 4 residues within 4Å: Chain E: Q.19, D.21, K.26, N.27 No protein-ligand interaction detected (PLIP)

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

NAG.5: 2 residues within 4Å: Chain A: Q.19, N.27 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.27 NAG.6: 4 residues within 4Å: Chain C: N.169, N.240, D.241, A.242 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:A.242 Hydrogen bonds: C:N.169, C:N.240

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, X. et al., A Unique and Conserved Neutralization Epitope in H5N1 Influenza Viruses Identified by an Antibody against the A/Goose/Guangdong/1/96 Hemagglutinin. J.Virol. (2013)

Release Date

2013-10-02

Peptides

Hemagglutinin HA1 chain: ACE
Hemagglutinin HA2 chain: BDI
H5M9 antibody, light chain (kappa): FGH
H5M9 antibody, heavy chain (IgG1): JKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
G

B
B

D
D

I
I

F
L

G
E

H
J

J
H

K
F

L
K

Hemagglutinin HA1 chain

Hemagglutinin HA2 chain

H5M9 antibody, light chain (kappa)

H5M9 antibody, heavy chain (IgG1)

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