SMTL ID : 5c4w.1 (3 other biounits)

Crystal structure of coxsackievirus A16

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 13 residues within 4Å: Chain A: I.111, D.112, L.113, M.114, F.135, F.137, Y.155, V.179, M.195, Y.201, W.203, N.228, M.230 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.111, A:L.113, A:F.135, A:F.137, A:Y.155, A:Y.155, A:V.179, A:W.203, A:N.228 Hydrogen bonds: A:L.113

2 x K: POTASSIUM ION(Non-covalent)

K.2: 4 residues within 4Å: Chain A: T.28, A.29, N.31, N.71 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.28, A:A.29 K.5: 3 residues within 4Å: Chain A: Q.189 Chain C: V.20, S.21 No protein-ligand interaction detected (PLIP)

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

NA.3: 8 residues within 4Å: Chain A: V.44, P.45, L.47, Q.48 Chain D: H.62, E.63, A.65, P.67 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.45, A:Q.48

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 1 residues within 4Å: Chain A: R.236 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: H.162, P.163, Y.164 Ligand excluded by PLIP CL.7: 7 residues within 4Å: Chain C: D.89, P.90, G.91, R.92, W.111, H.180, A.181 Ligand excluded by PLIP CL.8: 1 residues within 4Å: Chain C: G.1 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain C: G.27 Chain D: N.15, K.34 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ren, J. et al., Structures of Coxsackievirus A16 Capsids with Native Antigenicity: Implications for Particle Expansion, Receptor Binding, and Immunogenicity. J.Virol. (2015)

Release Date

2015-08-26

Peptides

VP1: A
VP2: B
VP3: C
VP4: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

VP1

VP2

VP3

VP4

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