SMTL ID : 9dqc.1

Hare calicivirus protruding domain and A-trisaccharide complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 16 residues within 4Å: Chain A: N.133, G.134, T.135, V.136, Q.137, G.169, V.170, A.171 Chain B: N.133, G.134, T.135, V.136, Q.137, G.169, V.170, A.171 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.134, B:Q.137, B:A.171, A:G.134, A:Q.137, A:A.171 EDO.2: 4 residues within 4Å: Chain A: T.145, G.146, A.147, Q.161 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.146

2 x GLA- FUC- A2G: alpha-L-fucopyranose-(1-2)-[2-acetamido-2-deoxy-alpha-D-galactopyranose-(1-3)]alpha-D-galactopyranose

GLA-FUC-A2G.3: 2 residues within 4Å: Chain B: V.243, N.244 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.244 GLA-FUC-A2G.4: 2 residues within 4Å: Chain A: V.243, N.244 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hansman, G.S. et al., Structural analysis of a non-pathogenic hare calicivirus capsid bound to a histo-blood group antigen co-factor. J.Virol. (2024)

Release Date

2024-10-30

Peptides

Hare calicivirus protruding domain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Hare calicivirus protruding domain