SMTL ID : 2r04.3 (3 other biounits)

STRUCTURAL ANALYSIS OF ANTIVIRAL AGENTS THAT INTERACT WITH THE CAPSID OF HUMAN RHINOVIRUSES

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-6-6-6-6-mer

Ligands

6 x W71: 5-(7-(4-(4,5-DIHYDRO-2-OXAZOLYL)PHENOXY)HEPTYL)-3-METHYL ISOXAZOLE(Non-covalent)

W71.1: 16 residues within 4Å: Chain A: I.104, L.106, Y.128, A.150, Y.152, P.174, V.176, F.186, V.188, V.191, Y.197, C.199, N.219, M.221, M.224 Chain C: A.24 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.104, A:I.104, A:L.106, A:Y.128, A:Y.152, A:F.186, A:V.188, A:V.191, A:Y.197, A:Y.197, A:M.221 Hydrogen bonds: A:N.219 Water bridges: A:L.106 pi-Stacking: A:Y.152, A:Y.197 W71.2: 16 residues within 4Å: Chain E: I.104, L.106, Y.128, A.150, Y.152, P.174, V.176, F.186, V.188, V.191, Y.197, C.199, N.219, M.221, M.224 Chain G: A.24 15 PLIP interactions: 15 interactions with chain E Hydrophobic interactions: E:I.104, E:I.104, E:L.106, E:Y.128, E:Y.152, E:F.186, E:V.188, E:V.191, E:Y.197, E:Y.197, E:M.221 Hydrogen bonds: E:N.219 Water bridges: E:L.106 pi-Stacking: E:Y.152, E:Y.197 W71.3: 16 residues within 4Å: Chain I: I.104, L.106, Y.128, A.150, Y.152, P.174, V.176, F.186, V.188, V.191, Y.197, C.199, N.219, M.221, M.224 Chain K: A.24 15 PLIP interactions: 15 interactions with chain I Hydrophobic interactions: I:I.104, I:I.104, I:L.106, I:Y.128, I:Y.152, I:F.186, I:V.188, I:V.191, I:Y.197, I:Y.197, I:M.221 Hydrogen bonds: I:N.219 Water bridges: I:L.106 pi-Stacking: I:Y.152, I:Y.197 W71.4: 16 residues within 4Å: Chain M: I.104, L.106, Y.128, A.150, Y.152, P.174, V.176, F.186, V.188, V.191, Y.197, C.199, N.219, M.221, M.224 Chain O: A.24 15 PLIP interactions: 15 interactions with chain M Hydrophobic interactions: M:I.104, M:I.104, M:L.106, M:Y.128, M:Y.152, M:F.186, M:V.188, M:V.191, M:Y.197, M:Y.197, M:M.221 Hydrogen bonds: M:N.219 Water bridges: M:L.106 pi-Stacking: M:Y.152, M:Y.197 W71.5: 16 residues within 4Å: Chain Q: I.104, L.106, Y.128, A.150, Y.152, P.174, V.176, F.186, V.188, V.191, Y.197, C.199, N.219, M.221, M.224 Chain S: A.24 15 PLIP interactions: 15 interactions with chain Q Hydrophobic interactions: Q:I.104, Q:I.104, Q:L.106, Q:Y.128, Q:Y.152, Q:F.186, Q:V.188, Q:V.191, Q:Y.197, Q:Y.197, Q:M.221 Hydrogen bonds: Q:N.219 Water bridges: Q:L.106 pi-Stacking: Q:Y.152, Q:Y.197 W71.6: 16 residues within 4Å: Chain U: I.104, L.106, Y.128, A.150, Y.152, P.174, V.176, F.186, V.188, V.191, Y.197, C.199, N.219, M.221, M.224 Chain W: A.24 15 PLIP interactions: 15 interactions with chain U Hydrophobic interactions: U:I.104, U:I.104, U:L.106, U:Y.128, U:Y.152, U:F.186, U:V.188, U:V.191, U:Y.197, U:Y.197, U:M.221 Hydrogen bonds: U:N.219 Water bridges: U:L.106 pi-Stacking: U:Y.152, U:Y.197

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Badger, J. et al., Structural analysis of antiviral agents that interact with the capsid of human rhinoviruses. Proteins (1989)

Release Date

1990-01-15

Peptides

HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP1): AEIMQU
HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP2): BFJNRV
HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP3): CGKOSW
HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP4): DHLPTX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

E
1

I
1

M
1

Q
1

U
1

B
2

F
2

J
2

N
2

R
2

V
2

C
3

G
3

K
3

O
3

S
3

W
3

D
4

H
4

L
4

P
4

T
4

X
4

HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP1)

HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP2)

HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP3)

HUMAN RHINOVIRUS 14 COAT PROTEIN (SUBUNIT VP4)

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