SMTL ID : 6z3q.3 (3 other biounits)

Structure of EV71 in complex with a protective antibody 38-1-10A Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

6 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 28 residues within 4Å: Chain A: I.111, D.112, I.113, T.114, F.131, A.133, F.135, F.137, Y.153, M.154, F.155, P.177, S.178, V.179, V.190, V.192, P.193, M.195, Y.201, Q.202, W.203, N.228, M.229, M.230, F.233, M.253 Chain C: I.24 Chain I: L.14 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.111, A:I.111, A:I.113, A:F.131, A:F.135, A:F.155, A:F.155, A:V.179, A:Y.201, A:M.230 Hydrogen bonds: A:I.111, A:I.113, A:N.228 SPH.2: 27 residues within 4Å: Chain G: I.111, D.112, I.113, T.114, F.131, A.133, F.135, F.137, Y.153, M.154, F.155, P.177, S.178, V.179, V.190, V.192, P.193, M.195, Y.201, Q.202, W.203, N.228, M.229, M.230, F.233, M.253 Chain I: I.24 13 PLIP interactions: 13 interactions with chain G Hydrophobic interactions: G:I.111, G:I.111, G:I.113, G:F.131, G:F.135, G:F.155, G:F.155, G:V.179, G:Y.201, G:M.230 Hydrogen bonds: G:I.111, G:I.113, G:N.228 SPH.3: 27 residues within 4Å: Chain M: I.111, D.112, I.113, T.114, F.131, A.133, F.135, F.137, Y.153, M.154, F.155, P.177, S.178, V.179, V.190, V.192, P.193, M.195, Y.201, Q.202, W.203, N.228, M.229, M.230, F.233, M.253 Chain O: I.24 13 PLIP interactions: 13 interactions with chain M Hydrophobic interactions: M:I.111, M:I.111, M:I.113, M:F.131, M:F.135, M:F.155, M:F.155, M:V.179, M:Y.201, M:M.230 Hydrogen bonds: M:I.111, M:I.113, M:N.228 SPH.4: 28 residues within 4Å: Chain O: L.14 Chain S: I.111, D.112, I.113, T.114, F.131, A.133, F.135, F.137, Y.153, M.154, F.155, P.177, S.178, V.179, V.190, V.192, P.193, M.195, Y.201, Q.202, W.203, N.228, M.229, M.230, F.233, M.253 Chain U: I.24 13 PLIP interactions: 13 interactions with chain S Hydrophobic interactions: S:I.111, S:I.111, S:I.113, S:F.131, S:F.135, S:F.155, S:F.155, S:V.179, S:Y.201, S:M.230 Hydrogen bonds: S:I.111, S:I.113, S:N.228 SPH.5: 28 residues within 4Å: Chain 0: I.24 Chain 6: L.14 Chain Y: I.111, D.112, I.113, T.114, F.131, A.133, F.135, F.137, Y.153, M.154, F.155, P.177, S.178, V.179, V.190, V.192, P.193, M.195, Y.201, Q.202, W.203, N.228, M.229, M.230, F.233, M.253 13 PLIP interactions: 13 interactions with chain Y Hydrophobic interactions: Y:I.111, Y:I.111, Y:I.113, Y:F.131, Y:F.135, Y:F.155, Y:F.155, Y:V.179, Y:Y.201, Y:M.230 Hydrogen bonds: Y:I.111, Y:I.113, Y:N.228 SPH.6: 27 residues within 4Å: Chain 4: I.111, D.112, I.113, T.114, F.131, A.133, F.135, F.137, Y.153, M.154, F.155, P.177, S.178, V.179, V.190, V.192, P.193, M.195, Y.201, Q.202, W.203, N.228, M.229, M.230, F.233, M.253 Chain 6: I.24 13 PLIP interactions: 13 interactions with chain 4 Hydrophobic interactions: 4:I.111, 4:I.111, 4:I.113, 4:F.131, 4:F.135, 4:F.155, 4:F.155, 4:V.179, 4:Y.201, 4:M.230 Hydrogen bonds: 4:I.111, 4:I.113, 4:N.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, K.A. et al., Structural and functional analysis of protective antibodies targeting the threefold plateau of enterovirus 71. Nat Commun (2020)

Release Date

2020-09-02

Peptides

VP1: AGMSY4
VP2: BHNTZ5
VP3: CIOU06
VP4: DJPV17
Heavy chain: EKQW28
Light chain: FLRX39

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

G
A

M
A

S
A

Y
A

4
A

B
B

H
B

N
B

T
B

Z
B

5
B

C
C

I
C

O
C

U
C

0
C

6
C

D
D

J
D

P
D

V
D

1
D

7
D

E
H

K
H

Q
H

W
H

2
H

8
H

F
L

L
L

R
L

X
L

3
L

9
L

VP1

VP2

VP3

VP4

Heavy chain

Light chain

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