SMTL ID : 8vsv.1

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

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-6-6-mer

Ligands

6 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 E: N.134, T.136, R.143 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 3 residues within 4Å: Chain F: N.134, T.136, R.143 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 3 residues within 4Å: Chain G: N.134, W.142, S.144 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:W.142 NAG-NAG-BMA.4: 4 residues within 4Å: Chain H: V.34, N.134, T.136, S.144 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 5 residues within 4Å: Chain I: N.134, T.136, S.141, W.142, S.144 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.6: 5 residues within 4Å: Chain J: N.134, S.141, W.142, R.143, S.144 No protein-ligand interaction detected (PLIP)

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.7: 2 residues within 4Å: Chain K: T.313, N.315 2 PLIP interactions: 2 interactions with chain K Hydrogen bonds: K:T.313, K:T.313 NAG.8: 2 residues within 4Å: Chain L: I.281, N.315 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain M: K.276, I.281, N.315 2 PLIP interactions: 2 interactions with chain M Hydrogen bonds: M:K.276, M:N.315 NAG.10: 2 residues within 4Å: Chain N: I.281, N.315 1 PLIP interactions: 1 interactions with chain N Hydrogen bonds: N:N.315 NAG.11: 3 residues within 4Å: Chain O: I.281, T.313, N.315 3 PLIP interactions: 3 interactions with chain O Hydrophobic interactions: O:I.281, O:T.313 Hydrogen bonds: O:N.315 NAG.12: 3 residues within 4Å: Chain P: K.276, I.281, N.315 3 PLIP interactions: 3 interactions with chain P Hydrogen bonds: P:K.276, P:K.276, P: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 intact human antibody EEEV-373. To be published

Release Date

2025-06-11

Peptides

IgG EEEV-373 Heavy chain: AC
IgG EEEV-373 Light chain.: BD
Spike glycoprotein E1: EFGHIJ
E2 glycoprotein: KLMNOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

C
3

B
2

D
4

E
A

F
B

G
C

H
D

I
E

J
F

K
a

L
b

M
c

N
d

O
e

P
f

IgG EEEV-373 Heavy chain

IgG EEEV-373 Light chain.

Spike glycoprotein E1

E2 glycoprotein

Related Entries With Identical Sequence