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

Cryo-EM structure of Echovirus 6 complexed with its attachment receptor CD55 at PH 5.5

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

6 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 14 residues within 4Å: Chain A: I.85, T.87, F.105, V.107, Y.136, P.158, V.160, M.171, I.173, Y.182, S.183, N.184, L.209, F.230 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.85, A:I.85, A:T.87, A:V.107, A:Y.136, A:V.160, A:I.173, A:I.173, A:Y.182, A:L.209, A:F.230 Hydrogen bonds: A:N.184 SPH.2: 14 residues within 4Å: Chain F: I.85, T.87, F.105, V.107, Y.136, P.158, V.160, M.171, I.173, Y.182, S.183, N.184, L.209, F.230 12 PLIP interactions: 12 interactions with chain F Hydrophobic interactions: F:I.85, F:I.85, F:T.87, F:V.107, F:Y.136, F:V.160, F:I.173, F:I.173, F:Y.182, F:L.209, F:F.230 Hydrogen bonds: F:N.184 SPH.3: 14 residues within 4Å: Chain K: I.85, T.87, F.105, V.107, Y.136, P.158, V.160, M.171, I.173, Y.182, S.183, N.184, L.209, F.230 12 PLIP interactions: 12 interactions with chain K Hydrophobic interactions: K:I.85, K:I.85, K:T.87, K:V.107, K:Y.136, K:V.160, K:I.173, K:I.173, K:Y.182, K:L.209, K:F.230 Hydrogen bonds: K:N.184 SPH.4: 14 residues within 4Å: Chain P: I.85, T.87, F.105, V.107, Y.136, P.158, V.160, M.171, I.173, Y.182, S.183, N.184, L.209, F.230 12 PLIP interactions: 12 interactions with chain P Hydrophobic interactions: P:I.85, P:I.85, P:T.87, P:V.107, P:Y.136, P:V.160, P:I.173, P:I.173, P:Y.182, P:L.209, P:F.230 Hydrogen bonds: P:N.184 SPH.5: 14 residues within 4Å: Chain U: I.85, T.87, F.105, V.107, Y.136, P.158, V.160, M.171, I.173, Y.182, S.183, N.184, L.209, F.230 12 PLIP interactions: 12 interactions with chain U Hydrophobic interactions: U:I.85, U:I.85, U:T.87, U:V.107, U:Y.136, U:V.160, U:I.173, U:I.173, U:Y.182, U:L.209, U:F.230 Hydrogen bonds: U:N.184 SPH.6: 14 residues within 4Å: Chain Z: I.85, T.87, F.105, V.107, Y.136, P.158, V.160, M.171, I.173, Y.182, S.183, N.184, L.209, F.230 12 PLIP interactions: 12 interactions with chain Z Hydrophobic interactions: Z:I.85, Z:I.85, Z:T.87, Z:V.107, Z:Y.136, Z:V.160, Z:I.173, Z:I.173, Z:Y.182, Z:L.209, Z:F.230 Hydrogen bonds: Z:N.184

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, X. et al., Human Neonatal Fc Receptor Is the Cellular Uncoating Receptor for Enterovirus B. Cell (2019)

Release Date

2019-05-15

Peptides

Capsid protein VP1: AFKPUZ
Capsid protein VP2: BGLQV0
Capsid protein VP3: CHMRW1
Capsid protein VP4: DINSX2
Complement decay-accelerating factor: EJOTY3

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
A

K
A

P
A

U
A

Z
A

B
B

G
B

L
B

Q
B

V
B

0
B

C
C

H
C

M
C

R
C

W
C

1
C

D
D

I
D

N
D

S
D

X
D

2
D

E
E

J
E

O
E

T
E

Y
E

3
E

Capsid protein VP1

Capsid protein VP2

Capsid protein VP3

Capsid protein VP4

Complement decay-accelerating factor

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