SMTL ID : 9m7v.3 (3 other biounits)

Cryo-EM structure of enterovirus A71 mature virion in complex with Fab CT11F9

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.04 Å

Oligo State

hetero-6-6-6-6-6-6-mer

Ligands

6 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 11 residues within 4Å: Chain C: I.111, D.112, F.135, F.155, V.179, V.192, M.195, Y.201, W.203, N.228, M.230 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:I.111, C:I.111, C:F.135, C:F.155, C:V.179, C:V.192, C:M.230 Hydrogen bonds: C:I.111 SPH.2: 11 residues within 4Å: Chain I: I.111, D.112, F.135, F.155, V.179, V.192, M.195, Y.201, W.203, N.228, M.230 8 PLIP interactions: 8 interactions with chain I Hydrophobic interactions: I:I.111, I:I.111, I:F.135, I:F.155, I:V.179, I:V.192, I:M.230 Hydrogen bonds: I:I.111 SPH.3: 11 residues within 4Å: Chain O: I.111, D.112, F.135, F.155, V.179, V.192, M.195, Y.201, W.203, N.228, M.230 8 PLIP interactions: 8 interactions with chain O Hydrophobic interactions: O:I.111, O:I.111, O:F.135, O:F.155, O:V.179, O:V.192, O:M.230 Hydrogen bonds: O:I.111 SPH.4: 11 residues within 4Å: Chain U: I.111, D.112, F.135, F.155, V.179, V.192, M.195, Y.201, W.203, N.228, M.230 8 PLIP interactions: 8 interactions with chain U Hydrophobic interactions: U:I.111, U:I.111, U:F.135, U:F.155, U:V.179, U:V.192, U:M.230 Hydrogen bonds: U:I.111 SPH.5: 11 residues within 4Å: Chain 0: I.111, D.112, F.135, F.155, V.179, V.192, M.195, Y.201, W.203, N.228, M.230 8 PLIP interactions: 8 interactions with chain 0 Hydrophobic interactions: 0:I.111, 0:I.111, 0:F.135, 0:F.155, 0:V.179, 0:V.192, 0:M.230 Hydrogen bonds: 0:I.111 SPH.6: 11 residues within 4Å: Chain 6: I.111, D.112, F.135, F.155, V.179, V.192, M.195, Y.201, W.203, N.228, M.230 8 PLIP interactions: 8 interactions with chain 6 Hydrophobic interactions: 6:I.111, 6:I.111, 6:F.135, 6:F.155, 6:V.179, 6:V.192, 6:M.230 Hydrogen bonds: 6:I.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, X. et al., Development of In Vitro Potency Methods to Replace In Vivo Tests for Enterovirus 71 Inactivated Vaccine (Human Diploid Cell-Based/Vero Cell-Based). Vaccines (Basel) (2025)

Release Date

2025-04-23

Peptides

The light chain of Fab CT11F9: AGMSY4
The heavy chain of Fab CT11F9: BHNTZ5
Capsid protein VP1: CIOU06
Capsid protein VP2: DJPV17
Capsid protein VP3: EKQW28
Capsid protein VP4: FLRX39

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

G
L

M
L

S
L

Y
L

4
L

B
H

H
H

N
H

T
H

Z
H

5
H

C
A

I
A

O
A

U
A

0
A

6
A

D
B

J
B

P
B

V
B

1
B

7
B

E
C

K
C

Q
C

W
C

2
C

8
C

F
D

L
D

R
D

X
D

3
D

9
D

The light chain of Fab CT11F9

The heavy chain of Fab CT11F9

Capsid protein VP1

Capsid protein VP2

Capsid protein VP3

Capsid protein VP4

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