SMTL ID : 6wf0.1

Crystal Structure of Broadly Neutralizing Antibody 3I14 Bound to the Influenza A H3 Hemagglutinin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.46 Å

Oligo State

hetero-3-3-3-3-mer

Ligands

12 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: 5 residues within 4Å: Chain A: N.37, N.277, V.289, N.290 Chain B: E.60 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 2 residues within 4Å: Chain A: N.55, Y.86 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 8 residues within 4Å: Chain A: N.157, T.159 Chain E: S.211, R.212, P.213, R.214 Ligands: NAG-NAG-BMA.6, NAG-NAG-BMA.6 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:R.214, E:R.214, E:R.214 NAG-NAG-BMA.6: 9 residues within 4Å: Chain A: A.155, N.157, R.193, N.238, S.239, T.240 Chain E: K.181, I.209 Ligands: NAG-NAG-BMA.5 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:K.181 NAG-NAG-BMA.7: 5 residues within 4Å: Chain E: N.37, N.277, V.289, N.290 Chain F: E.60 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.9: 2 residues within 4Å: Chain E: N.55, Y.86 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.11: 8 residues within 4Å: Chain E: N.157, T.159 Chain I: S.211, R.212, P.213, R.214 Ligands: NAG-NAG-BMA.12, NAG-NAG-BMA.12 3 PLIP interactions: 3 interactions with chain I Hydrogen bonds: I:R.214, I:R.214, I:R.214 NAG-NAG-BMA.12: 9 residues within 4Å: Chain E: A.155, N.157, R.193, N.238, S.239, T.240 Chain I: K.181, I.209 Ligands: NAG-NAG-BMA.11 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:K.181 NAG-NAG-BMA.13: 5 residues within 4Å: Chain I: N.37, N.277, V.289, N.290 Chain J: E.60 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.15: 2 residues within 4Å: Chain I: N.55, Y.86 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.17: 8 residues within 4Å: Chain A: S.211, R.212, P.213, R.214 Chain I: N.157, T.159 Ligands: NAG-NAG-BMA.18, NAG-NAG-BMA.18 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.214, A:R.214, A:R.214 NAG-NAG-BMA.18: 9 residues within 4Å: Chain A: K.181, I.209 Chain I: A.155, N.157, R.193, N.238, S.239, T.240 Ligands: NAG-NAG-BMA.17 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.181

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.2: 4 residues within 4Å: Chain A: N.30, A.31, T.32 Chain C: F.109 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 1 residues within 4Å: Chain A: N.125 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 4 residues within 4Å: Chain E: N.30, A.31, T.32 Chain G: F.109 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 1 residues within 4Å: Chain E: N.125 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 4 residues within 4Å: Chain I: N.30, A.31, T.32 Chain K: F.109 No protein-ligand interaction detected (PLIP) NAG-NAG.16: 1 residues within 4Å: Chain I: N.125 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harshbarger, W.D. et al., Unique structural solution from a V H 3-30 antibody targeting the hemagglutinin stem of influenza A viruses. Nat Commun (2021)

Release Date

2020-11-25

Peptides

Hemagglutinin: AEI
Hemagglutinin: BFJ
heavy chain: CGK
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

Hemagglutinin

heavy chain

light chain

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