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

Cryo-EM structure of echovirus 11 complexed with its attaching receptor CD55 at pH 5.5

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-6-6-6-mer

Ligands

6 x SPH: SPHINGOSINE(Covalent)(Non-covalent)

SPH.1: 26 residues within 4Å: Chain A: I.93, A.95, L.105, M.115, I.142, Y.144, P.166, M.179, I.181, I.184, Y.190, N.192, Y.208, M.214, I.217 Chain E: S.69, A.70, Q.100, M.101 Chain G: Y.106, A.108, H.109, L.224, L.225, K.226, D.227 13 PLIP interactions: 6 interactions with chain A, 6 interactions with chain G, 1 interactions with chain E Hydrophobic interactions: A:I.93, A:M.179, A:I.181, A:I.181, A:I.184, G:L.224, G:L.225, G:K.226, G:K.226, G:D.227, E:A.70 Hydrogen bonds: A:A.95, G:H.109 SPH.2: 15 residues within 4Å: Chain E: I.93, A.95, L.105, M.115, I.142, Y.144, P.166, M.179, I.181, I.184, Y.190, N.192, Y.208, M.214, I.217 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:I.93, E:I.181, E:I.181, E:I.184, E:Y.190, E:I.217 Hydrogen bonds: E:A.95, E:N.192 SPH.3: 15 residues within 4Å: Chain I: I.93, A.95, L.105, M.115, I.142, Y.144, P.166, M.179, I.181, I.184, Y.190, N.192, Y.208, M.214, I.217 9 PLIP interactions: 9 interactions with chain I Hydrophobic interactions: I:I.93, I:I.181, I:I.181, I:I.184, I:Y.190, I:I.217 Hydrogen bonds: I:A.95, I:N.192, I:Y.208 SPH.4: 26 residues within 4Å: Chain I: S.69, A.70, Q.100, M.101 Chain K: Y.106, A.108, H.109, L.224, L.225, K.226, D.227 Chain M: I.93, A.95, L.105, M.115, I.142, Y.144, P.166, M.179, I.181, I.184, Y.190, N.192, Y.208, M.214, I.217 14 PLIP interactions: 7 interactions with chain M, 6 interactions with chain K, 1 interactions with chain I Hydrophobic interactions: M:I.93, M:M.179, M:I.181, M:I.181, M:I.184, K:L.224, K:L.225, K:K.226, K:K.226, K:D.227, I:A.70 Hydrogen bonds: M:A.95, M:Y.208, K:H.109 SPH.5: 26 residues within 4Å: Chain Q: I.93, A.95, L.105, M.115, I.142, Y.144, P.166, M.179, I.181, I.184, Y.190, N.192, Y.208, M.214, I.217 Chain U: S.69, A.70, Q.100, M.101 Chain W: Y.106, A.108, H.109, L.224, L.225, K.226, D.227 14 PLIP interactions: 6 interactions with chain W, 7 interactions with chain Q, 1 interactions with chain U Hydrophobic interactions: W:L.224, W:L.225, W:K.226, W:K.226, W:D.227, Q:I.93, Q:M.179, Q:I.181, Q:I.181, Q:I.184, U:A.70 Hydrogen bonds: W:H.109, Q:A.95, Q:Y.208 SPH.6: 15 residues within 4Å: Chain U: I.93, A.95, L.105, M.115, I.142, Y.144, P.166, M.179, I.181, I.184, Y.190, N.192, Y.208, M.214, I.217 9 PLIP interactions: 9 interactions with chain U Hydrophobic interactions: U:I.93, U:I.181, U:I.181, U:I.184, U:Y.190, U:I.217 Hydrogen bonds: U:A.95, U:N.192, U:Y.208

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Niu, S. et al., Molecular and structural basis of Echovirus 11 infection by using the dual-receptor system of CD55 and FcRn. Chin.Sci.Bull. (2020)

Release Date

2020-10-07

Peptides

Capsid protein VP1: AEIMQU
Capsid protein VP2: BFJNRV
Capsid protein VP3: CGKOSW
Capsid protein VP4: DHLPTX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
A

I
A

M
A

Q
A

U
A

B
B

F
B

J
B

N
B

R
B

V
B

C
C

G
C

K
C

O
C

S
C

W
C

D
D

H
D

L
D

P
D

T
D

X
D

Capsid protein VP1

Capsid protein VP2

Capsid protein VP3

Capsid protein VP4

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