SMTL ID : 9ay1.4 (3 other biounits)

Cryo-EM structure of SINV/EEEV in complex with a potently neutralizing human antibody IgG EEEV-373

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-4-4-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: 3 residues within 4Å: Chain C: V.34, N.134, R.143 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 3 residues within 4Å: Chain D: N.134, T.136, R.143 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 3 residues within 4Å: Chain E: N.134, W.142, S.144 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-NAG.4: 5 residues within 4Å: Chain F: N.134, T.136, S.141, W.142 Ligands: BMA.5 No protein-ligand interaction detected (PLIP)

1 x BMA: beta-D-mannopyranose(Non-functional Binders)

BMA.5: 1 residues within 4Å: Ligands: NAG-NAG.4 No protein-ligand interaction detected (PLIP)

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.6: 2 residues within 4Å: Chain G: I.281, N.315 2 PLIP interactions: 2 interactions with chain G Hydrophobic interactions: G:I.281 Hydrogen bonds: G:N.315 NAG.7: 2 residues within 4Å: Chain H: I.281, N.315 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:N.315 NAG.8: 3 residues within 4Å: Chain I: K.276, I.281, N.315 2 PLIP interactions: 2 interactions with chain I Hydrogen bonds: I:K.276, I:N.315 NAG.9: 2 residues within 4Å: Chain J: I.281, N.315 2 PLIP interactions: 2 interactions with chain J Hydrophobic interactions: J:I.281 Hydrogen bonds: J:N.315

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bandyopadhyay, A. et al., Cryo-EM structure of SINV/EEEV in complex with a potently neutralizing human antibody IgG EEEV-373. To Be Published

Release Date

2025-06-11

Peptides

IgG EEEV-373 Heavy chain: A
IgG EEEV-373 Light chain: B
Spike glycoprotein E1: CDEF
E2 glycoprotein: GHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

B
2

C
A

D
B

E
C

F
D

G
a

H
b

I
c

J
d

IgG EEEV-373 Heavy chain

IgG EEEV-373 Light chain

Spike glycoprotein E1

E2 glycoprotein

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