SMTL ID : 9dd6.1

Cryo-EM structure of neutralizing murine antibody WS.HSV-1.24 in complex with HSV-1 glycoprotein B trimer gB-Ecto.516P.531E

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-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: 5 residues within 4Å: Chain A: Q.140, N.141, E.379, F.508, T.509 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain B: Q.140, N.141, E.379, F.508, T.509 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 5 residues within 4Å: Chain C: Q.140, N.141, E.379, F.508, T.509 No protein-ligand interaction detected (PLIP)

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.2: 3 residues within 4Å: Chain A: N.398, L.443, N.445 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 3 residues within 4Å: Chain B: N.398, L.443, N.445 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.6: 3 residues within 4Å: Chain C: N.398, L.443, N.445 No protein-ligand interaction detected (PLIP)

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

NAG.7: 2 residues within 4Å: Chain A: A.426, N.430 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.426 NAG.8: 4 residues within 4Å: Chain A: L.673, N.674 Chain C: T.367, K.368 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.368 NAG.9: 2 residues within 4Å: Chain B: A.426, N.430 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.426 NAG.10: 4 residues within 4Å: Chain A: T.367, K.368 Chain B: L.673, N.674 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.368 NAG.11: 2 residues within 4Å: Chain C: A.426, N.430 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:A.426 NAG.12: 4 residues within 4Å: Chain B: T.367, K.368 Chain C: L.673, N.674 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.368

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roark, R.S. et al., Prefusion structure, evasion and neutralization of HSV-1 glycoprotein B. Nat Microbiol (2025)

Release Date

2025-09-10

Peptides

Glycoprotein B: ABC
WS.HSV-1.24 heavy chain: DEF
WS.HSV-1.24 light chain: GHI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

E
I

F
J

G
L

H
M

I
N

Glycoprotein B

WS.HSV-1.24 heavy chain

WS.HSV-1.24 light chain

Related Entries With Identical Sequence