SMTL ID : 6lao.2 (3 other biounits)

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

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-5-5-5-5-mer

Ligands

5 x SPH: SPHINGOSINE(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, 1 interactions with chain E, 6 interactions with chain G Hydrophobic interactions: A:I.93, A:M.179, A:I.181, A:I.181, A:I.184, E:A.70, G:L.224, G:L.225, G:K.226, G:K.226, G:D.227 Hydrogen bonds: A:A.95, G:H.109 SPH.2: 26 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 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 13 PLIP interactions: 6 interactions with chain E, 1 interactions with chain I, 6 interactions with chain K Hydrophobic interactions: E:I.93, E:M.179, E:I.181, E:I.181, E:I.184, I:A.70, K:L.224, K:L.225, K:K.226, K:K.226, K:D.227 Hydrogen bonds: E:A.95, K:H.109 SPH.3: 26 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 Chain M: S.69, A.70, Q.100, M.101 Chain O: Y.106, A.108, H.109, L.224, L.225, K.226, D.227 14 PLIP interactions: 6 interactions with chain O, 7 interactions with chain I, 1 interactions with chain M Hydrophobic interactions: O:L.224, O:L.225, O:K.226, O:K.226, O:D.227, I:I.93, I:M.179, I:I.181, I:I.181, I:I.184, M:A.70 Hydrogen bonds: O:H.109, I:A.95, I:Y.208 SPH.4: 26 residues within 4Å: 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 Chain Q: S.69, A.70, Q.100, M.101 Chain S: Y.106, A.108, H.109, L.224, L.225, K.226, D.227 14 PLIP interactions: 7 interactions with chain M, 6 interactions with chain S, 1 interactions with chain Q Hydrophobic interactions: M:I.93, M:M.179, M:I.181, M:I.181, M:I.184, S:L.224, S:L.225, S:K.226, S:K.226, S:D.227, Q:A.70 Hydrogen bonds: M:A.95, M:Y.208, S:H.109 SPH.5: 26 residues within 4Å: Chain A: S.69, A.70, Q.100, M.101 Chain C: Y.106, A.108, H.109, L.224, L.225, K.226, D.227 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 14 PLIP interactions: 6 interactions with chain C, 7 interactions with chain Q, 1 interactions with chain A Hydrophobic interactions: C:L.224, C:L.225, C:K.226, C:K.226, C:D.227, Q:I.93, Q:M.179, Q:I.181, Q:I.181, Q:I.184, A:A.70 Hydrogen bonds: C:H.109, Q:A.95, Q: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: AEIMQ
Capsid protein VP2: BFJNR
Capsid protein VP3: CGKOS
Capsid protein VP4: DHLPT

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
A

I
A

M
A

Q
A

B
B

F
B

J
B

N
B

R
B

C
C

G
C

K
C

O
C

S
C

D
D

H
D

L
D

P
D

T
D

Capsid protein VP1

Capsid protein VP2

Capsid protein VP3

Capsid protein VP4

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