SMTL ID : 6fyu.1

Structure of H7(A/Shanghai/2/2013) Influenza Hemagglutinin in complex SD36

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.64 Å

Oligo State

hetero-3-3-3-mer

Ligands

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.1: 1 residues within 4Å: Chain A: N.231 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: V.27, N.28 Chain C: R.100 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 1 residues within 4Å: Chain D: N.231 No protein-ligand interaction detected (PLIP)

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

NAG.4: 5 residues within 4Å: Chain B: E.72, K.75, G.78, N.79, N.82 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:K.75 Hydrogen bonds: B:E.72, B:N.82 NAG.5: 4 residues within 4Å: Chain B: D.147, A.150, N.154, T.156 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.147, B:D.147, B:N.154 NAG.6: 3 residues within 4Å: Chain D: N.28, A.29, T.30 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:T.30 NAG.8: 5 residues within 4Å: Chain E: E.72, K.75, G.78, N.79, N.82 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:K.75 Hydrogen bonds: E:E.72, E:N.82 NAG.9: 4 residues within 4Å: Chain E: D.147, A.150, N.154, T.156 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:D.147, E:D.147, E:N.154 NAG.11: 3 residues within 4Å: Chain G: N.28, A.29, T.30 3 PLIP interactions: 3 interactions with chain G Hydrogen bonds: G:N.28, G:T.30, G:T.30 NAG.12: 1 residues within 4Å: Chain G: N.231 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:N.231 NAG.15: 5 residues within 4Å: Chain H: E.72, K.75, G.78, N.79, N.82 3 PLIP interactions: 3 interactions with chain H Hydrophobic interactions: H:K.75 Hydrogen bonds: H:E.72, H:N.82 NAG.16: 4 residues within 4Å: Chain H: D.147, A.150, N.154, T.156 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:D.147, H:D.147, H:N.154

4 x NA: SODIUM ION(Non-functional Binders)

NA.7: 4 residues within 4Å: Chain D: L.56, L.57, D.85, R.99 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:L.56, D:L.57, D:R.99, D:R.99 Water bridges: D:E.79 NA.10: 4 residues within 4Å: Chain E: D.46, T.49 Chain F: N.49, Y.56 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:Y.56, E:D.46 NA.13: 2 residues within 4Å: Chain G: S.290, Y.299 4 PLIP interactions: 4 interactions with chain G Hydrogen bonds: G:S.290, G:S.290, G:Y.299 Water bridges: G:S.290 NA.14: 3 residues within 4Å: Chain G: L.56, D.85, R.99 3 PLIP interactions: 3 interactions with chain G Hydrogen bonds: G:L.56, G:D.85, G:R.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Laursen, N.S. et al., Universal protection against influenza infection by a multidomain antibody to influenza hemagglutinin. Science (2018)

Release Date

2018-11-07

Peptides

Hemagglutinin: ADG
Hemagglutinin: BEH
Single domain antibody SD36: CFI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

G
G

B
B

E
E

H
H

C
C

F
F

I
I

Hemagglutinin

Hemagglutinin

Single domain antibody SD36

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