SMTL ID : 9b19.2 (3 other biounits)

EV-D68 in complex with inhibitor Jun11-54-1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-5-5-5-5-mer

Ligands

5 x 01: N-{(4M)-4-[5-(aminomethyl)thiophen-2-yl]quinolin-8-yl}-4-[(propan-2-yl)oxy]benzamide

01.1: 19 residues within 4Å: Chain A: V.81, W.105, I.107, T.109, F.127, I.131, A.157, M.158, F.159, A.181, S.182, V.183, I.194, I.196, Y.205, D.227, I.229, L.232, V.251 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:V.81, A:I.107, A:T.109, A:F.127, A:I.131, A:I.131, A:A.157, A:F.159, A:I.194, A:I.196, A:Y.205, A:Y.205, A:I.229, A:I.229, A:L.232 01.2: 19 residues within 4Å: Chain E: V.81, W.105, I.107, T.109, F.127, I.131, A.157, M.158, F.159, A.181, S.182, V.183, I.194, I.196, Y.205, D.227, I.229, L.232, V.251 15 PLIP interactions: 15 interactions with chain E Hydrophobic interactions: E:V.81, E:I.107, E:T.109, E:F.127, E:I.131, E:I.131, E:A.157, E:F.159, E:I.194, E:I.196, E:Y.205, E:Y.205, E:I.229, E:I.229, E:L.232 01.3: 19 residues within 4Å: Chain I: V.81, W.105, I.107, T.109, F.127, I.131, A.157, M.158, F.159, A.181, S.182, V.183, I.194, I.196, Y.205, D.227, I.229, L.232, V.251 15 PLIP interactions: 15 interactions with chain I Hydrophobic interactions: I:V.81, I:I.107, I:T.109, I:F.127, I:I.131, I:I.131, I:A.157, I:F.159, I:I.194, I:I.196, I:Y.205, I:Y.205, I:I.229, I:I.229, I:L.232 01.4: 19 residues within 4Å: Chain M: V.81, W.105, I.107, T.109, F.127, I.131, A.157, M.158, F.159, A.181, S.182, V.183, I.194, I.196, Y.205, D.227, I.229, L.232, V.251 15 PLIP interactions: 15 interactions with chain M Hydrophobic interactions: M:V.81, M:I.107, M:T.109, M:F.127, M:I.131, M:I.131, M:A.157, M:F.159, M:I.194, M:I.196, M:Y.205, M:Y.205, M:I.229, M:I.229, M:L.232 01.5: 19 residues within 4Å: Chain Q: V.81, W.105, I.107, T.109, F.127, I.131, A.157, M.158, F.159, A.181, S.182, V.183, I.194, I.196, Y.205, D.227, I.229, L.232, V.251 15 PLIP interactions: 15 interactions with chain Q Hydrophobic interactions: Q:V.81, Q:I.107, Q:T.109, Q:F.127, Q:I.131, Q:I.131, Q:A.157, Q:F.159, Q:I.194, Q:I.196, Q:Y.205, Q:Y.205, Q:I.229, Q:I.229, Q:L.232

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, K. et al., Design of enterovirus D68 capsid inhibitors with in vivo antiviral efficacy. To Be Published

Release Date

2025-03-19

Peptides

Capsid protein VP1: AEIMQ
viral protein 3: BFJNR
viral protein 2: 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

viral protein 3

viral protein 2

Capsid protein VP4

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