SMTL ID : 8yf7.4 (3 other biounits)

Cryo-EM structure of Dragon Grouper nervous necrosis virus-like particle at pH6.5 (2.82A)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: Q.100, S.170, E.213 Chain C: D.130, D.133 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A Metal complexes: C:D.130, C:D.133, C:D.133, A:S.170, A:E.213 CA.2: 5 residues within 4Å: Chain A: D.130, D.133 Chain B: Q.100, S.170, E.213 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Metal complexes: A:D.130, A:D.133, A:D.133, B:S.170 CA.3: 5 residues within 4Å: Chain B: D.130, D.133 Chain C: Q.100, S.170, E.213 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Metal complexes: B:D.130, B:D.133, B:D.133, C:S.170, C:E.213

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sterbova, P. et al., Molecular Mechanism of pH-Induced Protrusion Configuration Switching in Piscine Betanodavirus Implies a Novel Antiviral Strategy. Acs Infect Dis. (2024)

Release Date

2024-08-14

Peptides

Capsid protein alpha: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Capsid protein alpha

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