SMTL ID : 4gxu.2 (1 other biounit)

Crystal structure of antibody 1F1 bound to the 1918 influenza hemagglutinin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.29 Å

Oligo State

hetero-3-3-3-3-mer

Ligands

3 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.1: 9 residues within 4Å: Chain A: N.68, E.70, E.90, N.91, C.94, A.139, S.141, R.225 Chain G: R.56 2 PLIP interactions: 1 interactions with chain G, 1 interactions with chain A Hydrogen bonds: G:R.56, A:R.225 NAG-NAG-BMA.2: 8 residues within 4Å: Chain C: N.68, E.70, E.90, N.91, C.94, S.141, R.225 Chain I: R.56 2 PLIP interactions: 1 interactions with chain I, 1 interactions with chain C Hydrogen bonds: I:R.56, C:R.225 NAG-NAG-BMA.3: 8 residues within 4Å: Chain E: N.68, E.70, E.90, N.91, C.94, S.141, R.225 Chain K: R.56 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.225

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

NAG.4: 1 residues within 4Å: Chain A: N.15 No protein-ligand interaction detected (PLIP) NAG.5: 5 residues within 4Å: Chain B: A.147, E.150, S.151, N.154, T.156 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:N.154 Hydrogen bonds: B:A.147, B:N.154, B:T.156 NAG.6: 1 residues within 4Å: Chain C: N.15 No protein-ligand interaction detected (PLIP) NAG.7: 5 residues within 4Å: Chain D: A.147, E.150, S.151, N.154, T.156 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:N.154 Hydrogen bonds: D:A.147, D:N.154 NAG.8: 1 residues within 4Å: Chain E: N.15 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain F: E.150, N.154, T.156 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:N.154, F:T.156 Hydrogen bonds: F:E.150

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tsibane, T. et al., Influenza Human Monoclonal Antibody 1F1 Interacts with Three Major Antigenic Sites and Residues Mediating Human Receptor Specificity in H1N1 Viruses. Plos Pathog. (2012)

Release Date

2012-12-19

Peptides

Hemagglutinin HA1 chain: ACE
Hemagglutinin HA2 chain: BDF
Antibody 1F1, heavy chain: GIK
Antibody 1F1, light chain: HJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

C
I

E
K

B
H

D
J

F
L

G
S

I
U

K
W

H
T

J
V

L
X

Hemagglutinin HA1 chain

Hemagglutinin HA2 chain

Antibody 1F1, heavy chain

Antibody 1F1, light chain

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