SMTL ID : 6xsk.1

Cryo-EM Structure of Vaccine-Elicited Rhesus Antibody 789-203-3C12 in Complex with Stabilized SI06 (A/Solomon Islands/3/06) Influenza Hemagglutinin Trimer

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

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: 6 residues within 4Å: Chain C: N.81, E.83, E.103, N.104, C.107, R.237 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 5 residues within 4Å: Chain E: E.83, E.103, N.104, C.107, R.237 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.237 NAG-NAG-BMA.8: 6 residues within 4Å: Chain G: N.81, E.83, E.103, N.104, R.237 Ligands: NAG-NAG.7 No protein-ligand interaction detected (PLIP)

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: 3 residues within 4Å: Chain C: N.176, Y.214 Chain E: E.211 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 1 residues within 4Å: Chain C: N.71 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain E: N.176, N.261 Chain G: I.201, R.205, E.211 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:R.205 NAG-NAG.6: 2 residues within 4Å: Chain E: N.71, E.103 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 2 residues within 4Å: Chain G: N.71 Ligands: NAG-NAG-BMA.8 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 3 residues within 4Å: Chain C: E.211 Chain G: N.176, Y.214 No protein-ligand interaction detected (PLIP)

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

NAG.10: 2 residues within 4Å: Chain C: K.39, N.40 Ligand excluded by PLIP NAG.11: 2 residues within 4Å: Chain C: N.28 Chain L: S.31 Ligand excluded by PLIP NAG.12: 3 residues within 4Å: Chain C: P.141, N.142, N.176 Ligand excluded by PLIP NAG.13: 3 residues within 4Å: Chain C: N.55, C.291, N.303 Ligand excluded by PLIP NAG.14: 3 residues within 4Å: Chain D: E.150, N.154, T.156 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain E: N.40 Ligand excluded by PLIP NAG.16: 4 residues within 4Å: Chain E: N.27, N.28 Chain F: T.15 Chain J: S.31 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain E: N.142, P.175, N.176 Ligand excluded by PLIP NAG.18: 7 residues within 4Å: Chain E: E.51, S.53, H.54, N.55, A.301, I.302, N.303 Ligand excluded by PLIP NAG.19: 3 residues within 4Å: Chain F: E.150, N.154, T.156 Ligand excluded by PLIP NAG.20: 1 residues within 4Å: Chain G: N.40 Ligand excluded by PLIP NAG.21: 1 residues within 4Å: Chain G: N.28 Ligand excluded by PLIP NAG.22: 5 residues within 4Å: Chain G: S.53, H.54, N.55, A.301, N.303 Ligand excluded by PLIP NAG.23: 4 residues within 4Å: Chain G: N.142, H.143, P.175, N.176 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain H: N.154, T.156 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moin, S.M. et al., Co-immunization with hemagglutinin stem immunogens elicits cross-group neutralizing antibodies and broad protection against influenza A viruses. Immunity (2022)

Release Date

2021-07-21

Peptides

789-203-3C12 Fab Light Chain: AIK
789-203-3C12 Fab Heavy Chain: BJL
Hemagglutinin HA1 chain: CEG
Hemagglutinin HA2 chain: DFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

I
J

K
K

B
H

J
G

L
I

C
A

E
C

G
E

D
B

F
D

H
F

789-203-3C12 Fab Light Chain

789-203-3C12 Fab Heavy Chain

Hemagglutinin HA1 chain

Hemagglutinin HA2 chain