SMTL ID : 4wm7.5 (4 other biounits)

Crystal Structure of Human Enterovirus D68 in Complex with Pleconaril

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.32 Å

Oligo State

hetero-15-15-15-15-mer

Ligands

15 x W11: 3-{3,5-DIMETHYL-4-[3-(3-METHYL-ISOXAZOL-5-YL)-PROPOXY]-PHENYL}-5-TRIFLUOROMETHYL-[1,2,4]OXADIAZOLE(Non-covalent)

W11.1: 16 residues within 4Å: Chain A: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain C: V.24 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.93, A:I.95, A:I.95, A:I.119, A:I.119, A:F.147, A:I.184, A:I.184, A:I.184, A:I.217 pi-Stacking: A:Y.193 Halogen bonds: A:A.145 W11.2: 16 residues within 4Å: Chain E: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain G: V.24 12 PLIP interactions: 12 interactions with chain E Hydrophobic interactions: E:W.93, E:I.95, E:I.95, E:I.119, E:I.119, E:F.147, E:I.184, E:I.184, E:I.184, E:I.217 pi-Stacking: E:Y.193 Halogen bonds: E:A.145 W11.3: 16 residues within 4Å: Chain I: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain K: V.24 12 PLIP interactions: 12 interactions with chain I Hydrophobic interactions: I:W.93, I:I.95, I:I.95, I:I.119, I:I.119, I:F.147, I:I.184, I:I.184, I:I.184, I:I.217 pi-Stacking: I:Y.193 Halogen bonds: I:A.145 W11.4: 16 residues within 4Å: Chain M: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain O: V.24 12 PLIP interactions: 12 interactions with chain M Hydrophobic interactions: M:W.93, M:I.95, M:I.95, M:I.119, M:I.119, M:F.147, M:I.184, M:I.184, M:I.184, M:I.217 pi-Stacking: M:Y.193 Halogen bonds: M:A.145 W11.5: 16 residues within 4Å: Chain Q: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain S: V.24 12 PLIP interactions: 12 interactions with chain Q Hydrophobic interactions: Q:W.93, Q:I.95, Q:I.95, Q:I.119, Q:I.119, Q:F.147, Q:I.184, Q:I.184, Q:I.184, Q:I.217 pi-Stacking: Q:Y.193 Halogen bonds: Q:A.145 W11.6: 16 residues within 4Å: Chain U: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain W: V.24 12 PLIP interactions: 12 interactions with chain U Hydrophobic interactions: U:W.93, U:I.95, U:I.95, U:I.119, U:I.119, U:F.147, U:I.184, U:I.184, U:I.184, U:I.217 pi-Stacking: U:Y.193 Halogen bonds: U:A.145 W11.7: 16 residues within 4Å: Chain 0: V.24 Chain Y: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 12 PLIP interactions: 12 interactions with chain Y Hydrophobic interactions: Y:W.93, Y:I.95, Y:I.95, Y:I.119, Y:I.119, Y:F.147, Y:I.184, Y:I.184, Y:I.184, Y:I.217 pi-Stacking: Y:Y.193 Halogen bonds: Y:A.145 W11.8: 16 residues within 4Å: Chain 2: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain 4: V.24 12 PLIP interactions: 12 interactions with chain 2 Hydrophobic interactions: 2:W.93, 2:I.95, 2:I.95, 2:I.119, 2:I.119, 2:F.147, 2:I.184, 2:I.184, 2:I.184, 2:I.217 pi-Stacking: 2:Y.193 Halogen bonds: 2:A.145 W11.9: 16 residues within 4Å: Chain 6: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain 8: V.24 12 PLIP interactions: 12 interactions with chain 6 Hydrophobic interactions: 6:W.93, 6:I.95, 6:I.95, 6:I.119, 6:I.119, 6:F.147, 6:I.184, 6:I.184, 6:I.184, 6:I.217 pi-Stacking: 6:Y.193 Halogen bonds: 6:A.145 W11.10: 16 residues within 4Å: Chain a: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain c: V.24 12 PLIP interactions: 12 interactions with chain a Hydrophobic interactions: a:W.93, a:I.95, a:I.95, a:I.119, a:I.119, a:F.147, a:I.184, a:I.184, a:I.184, a:I.217 pi-Stacking: a:Y.193 Halogen bonds: a:A.145 W11.11: 16 residues within 4Å: Chain e: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain g: V.24 12 PLIP interactions: 12 interactions with chain e Hydrophobic interactions: e:W.93, e:I.95, e:I.95, e:I.119, e:I.119, e:F.147, e:I.184, e:I.184, e:I.184, e:I.217 pi-Stacking: e:Y.193 Halogen bonds: e:A.145 W11.12: 16 residues within 4Å: Chain i: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain k: V.24 12 PLIP interactions: 12 interactions with chain i Hydrophobic interactions: i:W.93, i:I.95, i:I.95, i:I.119, i:I.119, i:F.147, i:I.184, i:I.184, i:I.184, i:I.217 pi-Stacking: i:Y.193 Halogen bonds: i:A.145 W11.13: 16 residues within 4Å: Chain m: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain o: V.24 12 PLIP interactions: 12 interactions with chain m Hydrophobic interactions: m:W.93, m:I.95, m:I.95, m:I.119, m:I.119, m:F.147, m:I.184, m:I.184, m:I.184, m:I.217 pi-Stacking: m:Y.193 Halogen bonds: m:A.145 W11.14: 16 residues within 4Å: Chain q: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain s: V.24 12 PLIP interactions: 12 interactions with chain q Hydrophobic interactions: q:W.93, q:I.95, q:I.95, q:I.119, q:I.119, q:F.147, q:I.184, q:I.184, q:I.184, q:I.217 pi-Stacking: q:Y.193 Halogen bonds: q:A.145 W11.15: 16 residues within 4Å: Chain u: W.93, I.95, T.97, F.115, I.119, I.121, A.145, F.147, A.169, V.171, M.182, I.184, Y.193, I.217, L.220 Chain w: V.24 12 PLIP interactions: 12 interactions with chain u Hydrophobic interactions: u:W.93, u:I.95, u:I.95, u:I.119, u:I.119, u:F.147, u:I.184, u:I.184, u:I.184, u:I.217 pi-Stacking: u:Y.193 Halogen bonds: u:A.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Virus structure. Structure and inhibition of EV-D68, a virus that causes respiratory illness in children. Science (2015)

Release Date

2015-01-14

Peptides

VP1: AEIMQUY26aeimqu
VP2: BFJNRVZ37bfjnrv
VP3: CGKOSW048cgkosw
VP4: DHLPTX159dhlptx

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
A

I
A

M
A

Q
A

U
A

Y
A

2
A

6
A

a
A

e
A

i
A

m
A

q
A

u
A

B
B

F
B

J
B

N
B

R
B

V
B

Z
B

3
B

7
B

b
B

f
B

j
B

n
B

r
B

v
B

C
C

G
C

K
C

O
C

S
C

W
C

0
C

4
C

8
C

c
C

g
C

k
C

o
C

s
C

w
C

D
D

H
D

L
D

P
D

T
D

X
D

1
D

5
D

9
D

d
D

h
D

l
D

p
D

t
D

x
D

VP1

VP2

VP3

VP4

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