SMTL ID : 4c10.1 (3 other biounits)

Cryo-EM reconstruction of empty enterovirus 71 in complex with a neutralizing antibody E19

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 13.00 Å

Oligo State

hetero-1-1-1-1-1-1-mer

Ligands

1 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 11 residues within 4Å: Chain C: I.111, D.112, F.135, Y.153, F.155, V.179, V.192, Y.201, W.203, N.228, F.233 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:I.111, C:F.135, C:F.135, C:Y.153, C:F.155, C:V.179, C:V.192, C:V.192, C:W.203, C:F.233 Hydrogen bonds: C:I.111, C:D.112, C:Q.202

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

NA.2: 4 residues within 4Å: Chain C: T.28, G.29, N.31, N.71 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.28, C:N.31, C:N.31 NA.3: 4 residues within 4Å: Chain C: S.56, T.58 Chain E: E.116, Q.221 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.58 NA.4: 7 residues within 4Å: Chain C: V.44, P.45, L.47, Q.48 Chain F: E.63, A.65, P.67 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:P.45, C:Q.48 NA.5: 3 residues within 4Å: Chain C: E.164, S.165, S.168 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.164, C:S.165 NA.6: 5 residues within 4Å: Chain C: S.15, S.17 Chain D: S.40, Y.41, R.103 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:S.17, D:R.103 NA.7: 3 residues within 4Å: Chain C: Q.189 Chain E: V.20, S.21 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain C Hydrogen bonds: E:S.21, C:Q.189

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

CL.8: 6 residues within 4Å: Chain E: D.89, P.90, G.91, W.111, H.180, A.181 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Plevka, P. et al., Neutralizing Antibodies Can Initiate Genome Release from Human Enterovirus 71. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-02-05

Peptides

EV19 5 C1-6 F1 C11: A
EV19 5 C1-6 F1 C11: B
VP1: C
VP3: D
VP2: E
VP4: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
4

B
5

C
A

D
B

E
C

F
D

EV19 5 C1-6 F1 C11

EV19 5 C1-6 F1 C11

VP1

VP3

VP2

VP4

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