SMTL ID : 8tpa.1

H1 hemagglutinin (NC99) in complex with medial-junction-targeting Fab 2-2-1G06

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-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: 8 residues within 4Å: Chain A: N.81, E.83, E.103, N.104, C.107, C.152, S.153, R.237 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 8 residues within 4Å: Chain E: N.81, E.83, E.103, N.104, C.107, C.152, S.153, R.237 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 8 residues within 4Å: Chain I: N.81, E.83, E.103, N.104, C.107, C.152, S.153, R.237 No protein-ligand interaction detected (PLIP)

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

NAG.4: 2 residues within 4Å: Chain A: P.141, N.142 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.141 NAG.5: 1 residues within 4Å: Chain A: N.176 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.176 NAG.6: 3 residues within 4Å: Chain A: N.303, S.304, S.305 No protein-ligand interaction detected (PLIP) NAG.7: 3 residues within 4Å: Chain A: G.70, N.71 Chain B: R.66 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.66, A:N.71 NAG.8: 2 residues within 4Å: Chain E: P.141, N.142 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:P.141 NAG.9: 1 residues within 4Å: Chain E: N.176 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.176 NAG.10: 3 residues within 4Å: Chain E: N.303, S.304, S.305 No protein-ligand interaction detected (PLIP) NAG.11: 3 residues within 4Å: Chain E: G.70, N.71 Chain F: R.66 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:N.71, F:R.66 NAG.12: 2 residues within 4Å: Chain I: P.141, N.142 1 PLIP interactions: 1 interactions with chain I Hydrophobic interactions: I:P.141 NAG.13: 1 residues within 4Å: Chain I: N.176 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.176 NAG.14: 3 residues within 4Å: Chain I: N.303, S.304, S.305 No protein-ligand interaction detected (PLIP) NAG.15: 3 residues within 4Å: Chain I: G.70, N.71 Chain J: R.66 2 PLIP interactions: 1 interactions with chain J, 1 interactions with chain I Hydrogen bonds: J:R.66, I:N.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, Y.R. et al., Immune memory shapes human polyclonal antibody responses to H2N2 vaccination. Biorxiv (2023)

Release Date

2023-10-11

Peptides

Hemagglutinin HA1 chain: AEI
Heavy chain of Fab 2-2-1G06: BFJ
Light chain of Fab 2-2-1G06: CGK
Hemagglutinin HA2 chain: DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
C

I
G

B
H

F
D

J
I

C
L

G
E

K
J

D
B

H
F

L
K

Hemagglutinin HA1 chain

Heavy chain of Fab 2-2-1G06

Light chain of Fab 2-2-1G06

Hemagglutinin HA2 chain

Related Entries With Identical Sequence