SMTL ID : 9mw5.1

D1 Herpes Virus Simplex Neutralizing Nanobody Bound to HSV Glycoprotein gB

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.10 Å

Oligo State

hetero-3-3-mer

Ligands

6 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: F.100, Q.102, N.515, R.518 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.102, A:N.515, A:N.515, A:R.518 NA.2: 3 residues within 4Å: Chain A: R.104, C.504, Q.507 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.104 NA.3: 3 residues within 4Å: Chain B: R.104, C.504, Q.507 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.104 NA.4: 4 residues within 4Å: Chain B: F.100, Q.102, N.515, R.518 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.102, B:N.515, B:N.515, B:R.518 Water bridges: B:R.518 NA.5: 3 residues within 4Å: Chain C: R.104, C.504, Q.507 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.104 Water bridges: C:R.104 NA.6: 4 residues within 4Å: Chain C: F.100, Q.102, N.515, R.518 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.102, C:N.515, C:N.515, C:R.518

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, C.V. et al., Identification and engineering of potent bispecific antibodies that protect against herpes simplex virus recurrent disease. Cell Rep (2025)

Release Date

2025-08-13

Peptides

Envelope glycoprotein B: ABC
D1 Neutralizing Nanobody: DEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Envelope glycoprotein B

D1 Neutralizing Nanobody