SMTL ID : 6zlz.1

Crystal Structure of Merkel Cell Polyomavirus Virus-like Particle

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.52 Å

Oligo State

homo-hexamer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: S.236, E.239 Chain C: E.353 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain C Metal complexes: A:S.236, A:E.239, A:E.239, C:E.353, C:E.353 CA.2: 4 residues within 4Å: Chain A: E.353 Chain B: E.56 Chain C: S.236, E.239 5 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B, 1 interactions with chain A Metal complexes: C:S.236, C:E.239, C:E.239, B:E.56, A:E.353 CA.3: 3 residues within 4Å: Chain B: S.236, E.239 Chain F: E.56 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain F Metal complexes: B:S.236, B:E.239, B:E.239, F:E.56, F:E.56 CA.4: 3 residues within 4Å: Chain C: E.56 Chain D: S.236, E.239 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain C Metal complexes: D:S.236, D:E.239, D:E.239, C:E.56, C:E.56 CA.5: 3 residues within 4Å: Chain D: E.56 Chain E: S.236, E.239 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain E Metal complexes: D:E.56, D:E.56, E:S.236, E:E.239, E:E.239 CA.6: 3 residues within 4Å: Chain E: E.56 Chain F: S.236, E.239 5 PLIP interactions: 2 interactions with chain E, 3 interactions with chain F Metal complexes: E:E.56, E:E.56, F:S.236, F:E.239, F:E.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bayer, N.J. et al., Structure of Merkel Cell Polyomavirus Capsid and Interaction with Its Glycosaminoglycan Attachment Receptor. J.Virol. (2020)

Release Date

2020-08-05

Peptides

Capsid protein VP1: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Capsid protein VP1

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