SMTL ID : 6lha.2 (3 other biounits)

The cryo-EM structure of coxsackievirus A16 mature virion

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-5-5-5-5-mer

Ligands

5 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 11 residues within 4Å: Chain A: I.111, D.112, L.113, Y.155, V.190, V.192, Y.201, W.203, N.228, M.230, F.233 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.111, A:Y.155, A:Y.155, A:V.190, A:V.192, A:Y.201, A:F.233 Hydrogen bonds: A:D.112, A:L.113, A:N.228 SPH.2: 11 residues within 4Å: Chain E: I.111, D.112, L.113, Y.155, V.190, V.192, Y.201, W.203, N.228, M.230, F.233 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:I.111, E:Y.155, E:Y.155, E:V.190, E:V.192, E:Y.201, E:F.233 Hydrogen bonds: E:D.112, E:L.113, E:N.228 SPH.3: 11 residues within 4Å: Chain I: I.111, D.112, L.113, Y.155, V.190, V.192, Y.201, W.203, N.228, M.230, F.233 10 PLIP interactions: 10 interactions with chain I Hydrophobic interactions: I:I.111, I:Y.155, I:Y.155, I:V.190, I:V.192, I:Y.201, I:F.233 Hydrogen bonds: I:D.112, I:L.113, I:N.228 SPH.4: 11 residues within 4Å: Chain M: I.111, D.112, L.113, Y.155, V.190, V.192, Y.201, W.203, N.228, M.230, F.233 10 PLIP interactions: 10 interactions with chain M Hydrophobic interactions: M:I.111, M:Y.155, M:Y.155, M:V.190, M:V.192, M:Y.201, M:F.233 Hydrogen bonds: M:D.112, M:L.113, M:N.228 SPH.5: 11 residues within 4Å: Chain Q: I.111, D.112, L.113, Y.155, V.190, V.192, Y.201, W.203, N.228, M.230, F.233 10 PLIP interactions: 10 interactions with chain Q Hydrophobic interactions: Q:I.111, Q:Y.155, Q:Y.155, Q:V.190, Q:V.192, Q:Y.201, Q:F.233 Hydrogen bonds: Q:D.112, Q:L.113, Q:N.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, M. et al., Identification of Antibodies with Non-overlapping Neutralization Sites that Target Coxsackievirus A16. Cell Host Microbe (2020)

Release Date

2020-02-05

Peptides

VP1 protein: AEIMQ
VP2 protein: BFJNR
VP3 protein: CGKOS
VP4 protein: DHLPT

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
A

I
A

M
A

Q
A

B
B

F
B

J
B

N
B

R
B

C
C

G
C

K
C

O
C

S
C

D
D

H
D

L
D

P
D

T
D

VP1 protein

VP2 protein

VP3 protein

VP4 protein

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