SMTL ID : 3lzf.1 (2 other biounits)

Crystal Structure of Fab 2D1 in Complex with the 1918 Influenza Virus Hemagglutinin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-3-3-3-3-mer

Ligands

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

NAG-NAG.1: 1 residues within 4Å: Chain A: N.27 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.280, N.291 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 1 residues within 4Å: Chain E: N.27 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 2 residues within 4Å: Chain E: N.280, N.291 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 1 residues within 4Å: Chain I: N.27 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 2 residues within 4Å: Chain I: N.280, N.291 No protein-ligand interaction detected (PLIP)

3 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-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.2: 6 residues within 4Å: Chain A: N.68, E.70, E.90, N.91, C.94, R.225 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.225, A:R.225 NAG-NAG-BMA-MAN.6: 6 residues within 4Å: Chain E: N.68, E.70, E.90, N.91, C.94, R.225 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.225, E:R.225 NAG-NAG-BMA-MAN.10: 6 residues within 4Å: Chain I: N.68, E.70, E.90, N.91, C.94, R.225 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:R.225, I:R.225

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

NAG.4: 1 residues within 4Å: Chain A: N.15 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.15 NAG.8: 1 residues within 4Å: Chain E: N.15 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.15 NAG.12: 1 residues within 4Å: Chain I: N.15 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.15

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Xu, R. et al., Structural basis of preexisting immunity to the 2009 H1N1 pandemic influenza virus. Science (2010)

Release Date

2010-04-07

Peptides

Hemagglutinin, HA1 Subunit: AEI
Hemagglutinin, HA2 Subunit: BFJ
2D1 Fab, Heavy Chain: CGK
2D1 Fab, Light Chain: DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
A

I
A

B
B

F
B

J
B

C
H

G
H

K
H

D
L

H
L

L
L

Hemagglutinin, HA1 Subunit

Hemagglutinin, HA2 Subunit

2D1 Fab, Heavy Chain

2D1 Fab, Light Chain

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