SMTL ID : 8en4.1

Structure of GII.4 norovirus in complex with Nanobody 53

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-mer

Ligands

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 7 residues within 4Å: Chain B: L.33, M.34, G.35, Y.37, T.50, H.96, V.98 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.33, B:Y.37, B:H.96 EDO.2: 4 residues within 4Å: Chain B: G.10, L.11, Q.111, T.113 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.111, B:T.113 EDO.3: 6 residues within 4Å: Chain A: V.110, H.124, K.125 Chain D: V.110, H.124, K.125 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kher, G. et al., Direct Blockade of the Norovirus Histo-Blood Group Antigen Binding Pocket by Nanobodies. J.Virol. (2023)

Release Date

2023-03-15

Peptides

VP1: AD
Nanobody 53: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

D
A

B
C

C
D

VP1

Nanobody 53