SMTL ID : 9b1b.3 (3 other biounits)

EV-D68 in complex with inhibitor Jun11-78-7

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-6-6-6-mer

Ligands

6 x 01: 4-[(propan-2-yl)oxy]-N-{(4M)-4-[1-(2,2,2-trifluoroethyl)-1H-pyrazol-4-yl]quinolin-8-yl}benzamide

01.1: 20 residues within 4Å: Chain A: W.105, I.107, N.108, T.109, R.110, L.119, F.127, I.131, A.157, M.158, F.159, A.181, I.194, I.196, Y.205, V.207, I.229, L.232, V.251, M.253 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.105, A:W.105, A:I.107, A:I.131, A:I.131, A:A.157, A:F.159, A:A.181, A:I.194, A:I.196, A:I.196, A:I.229, A:I.229, A:L.232 Halogen bonds: A:R.110 01.2: 20 residues within 4Å: Chain E: W.105, I.107, N.108, T.109, R.110, L.119, F.127, I.131, A.157, M.158, F.159, A.181, I.194, I.196, Y.205, V.207, I.229, L.232, V.251, M.253 15 PLIP interactions: 15 interactions with chain E Hydrophobic interactions: E:W.105, E:W.105, E:I.107, E:I.131, E:I.131, E:A.157, E:F.159, E:A.181, E:I.194, E:I.196, E:I.196, E:I.229, E:I.229, E:L.232 Halogen bonds: E:R.110 01.3: 20 residues within 4Å: Chain I: W.105, I.107, N.108, T.109, R.110, L.119, F.127, I.131, A.157, M.158, F.159, A.181, I.194, I.196, Y.205, V.207, I.229, L.232, V.251, M.253 15 PLIP interactions: 15 interactions with chain I Hydrophobic interactions: I:W.105, I:W.105, I:I.107, I:I.131, I:I.131, I:A.157, I:F.159, I:A.181, I:I.194, I:I.196, I:I.196, I:I.229, I:I.229, I:L.232 Halogen bonds: I:R.110 01.4: 20 residues within 4Å: Chain M: W.105, I.107, N.108, T.109, R.110, L.119, F.127, I.131, A.157, M.158, F.159, A.181, I.194, I.196, Y.205, V.207, I.229, L.232, V.251, M.253 15 PLIP interactions: 15 interactions with chain M Hydrophobic interactions: M:W.105, M:W.105, M:I.107, M:I.131, M:I.131, M:A.157, M:F.159, M:A.181, M:I.194, M:I.196, M:I.196, M:I.229, M:I.229, M:L.232 Halogen bonds: M:R.110 01.5: 20 residues within 4Å: Chain Q: W.105, I.107, N.108, T.109, R.110, L.119, F.127, I.131, A.157, M.158, F.159, A.181, I.194, I.196, Y.205, V.207, I.229, L.232, V.251, M.253 15 PLIP interactions: 15 interactions with chain Q Hydrophobic interactions: Q:W.105, Q:W.105, Q:I.107, Q:I.131, Q:I.131, Q:A.157, Q:F.159, Q:A.181, Q:I.194, Q:I.196, Q:I.196, Q:I.229, Q:I.229, Q:L.232 Halogen bonds: Q:R.110 01.6: 20 residues within 4Å: Chain U: W.105, I.107, N.108, T.109, R.110, L.119, F.127, I.131, A.157, M.158, F.159, A.181, I.194, I.196, Y.205, V.207, I.229, L.232, V.251, M.253 15 PLIP interactions: 15 interactions with chain U Hydrophobic interactions: U:W.105, U:W.105, U:I.107, U:I.131, U:I.131, U:A.157, U:F.159, U:A.181, U:I.194, U:I.196, U:I.196, U:I.229, U:I.229, U:L.232 Halogen bonds: U:R.110

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: AEIMQU
viral protein 3: BFJNRV
viral protein 2: 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

viral protein 3

viral protein 2

Capsid protein VP4

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