SMTL ID : 1qjy.3 (3 other biounits)

HUMAN RHINOVIRUS 16 COAT PROTEIN IN COMPLEX WITH ANTIVIRAL COMPOUND VP65099

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-6-6-6-6-mer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.134 Chain E: H.134 Ligands: ZN.4 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain A Metal complexes: E:H.134, A:H.134 ZN.4: 3 residues within 4Å: Chain A: H.134 Chain E: H.134 Ligands: ZN.1 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain A Metal complexes: E:H.134, A:H.134 ZN.7: 3 residues within 4Å: Chain I: H.134 Chain M: H.134 Ligands: ZN.10 2 PLIP interactions: 1 interactions with chain M, 1 interactions with chain I Metal complexes: M:H.134, I:H.134 ZN.10: 3 residues within 4Å: Chain I: H.134 Chain M: H.134 Ligands: ZN.7 2 PLIP interactions: 1 interactions with chain M, 1 interactions with chain I Metal complexes: M:H.134, I:H.134 ZN.13: 3 residues within 4Å: Chain Q: H.134 Chain U: H.134 Ligands: ZN.16 2 PLIP interactions: 1 interactions with chain U, 1 interactions with chain Q Metal complexes: U:H.134, Q:H.134 ZN.16: 3 residues within 4Å: Chain Q: H.134 Chain U: H.134 Ligands: ZN.13 2 PLIP interactions: 1 interactions with chain Q, 1 interactions with chain U Metal complexes: Q:H.134, U:H.134

6 x W03: 2,6-DIMETHYL-1-(3-[3-METHYL-5-ISOXAZOLYL]-PROPANYL)-4-[2-METHYL-4-ISOXAZOLYL]-PHENOL(Non-covalent)

W03.2: 14 residues within 4Å: Chain A: I.98, L.100, I.122, Y.142, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.214, L.217, I.236 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.98, A:I.122, A:Y.142, A:Y.144, A:Y.144, A:V.168, A:F.179, A:F.179, A:L.181, A:L.184, A:Y.190, A:Y.190, A:I.236 Water bridges: A:L.100 W03.5: 14 residues within 4Å: Chain E: I.98, L.100, I.122, Y.142, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.214, L.217, I.236 14 PLIP interactions: 14 interactions with chain E Hydrophobic interactions: E:I.98, E:I.122, E:Y.142, E:Y.144, E:Y.144, E:V.168, E:F.179, E:F.179, E:L.181, E:L.184, E:Y.190, E:Y.190, E:I.236 Water bridges: E:L.100 W03.8: 14 residues within 4Å: Chain I: I.98, L.100, I.122, Y.142, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.214, L.217, I.236 14 PLIP interactions: 14 interactions with chain I Hydrophobic interactions: I:I.98, I:I.122, I:Y.142, I:Y.144, I:Y.144, I:V.168, I:F.179, I:F.179, I:L.181, I:L.184, I:Y.190, I:Y.190, I:I.236 Water bridges: I:L.100 W03.11: 14 residues within 4Å: Chain M: I.98, L.100, I.122, Y.142, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.214, L.217, I.236 14 PLIP interactions: 14 interactions with chain M Hydrophobic interactions: M:I.98, M:I.122, M:Y.142, M:Y.144, M:Y.144, M:V.168, M:F.179, M:F.179, M:L.181, M:L.184, M:Y.190, M:Y.190, M:I.236 Water bridges: M:L.100 W03.14: 14 residues within 4Å: Chain Q: I.98, L.100, I.122, Y.142, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.214, L.217, I.236 14 PLIP interactions: 14 interactions with chain Q Hydrophobic interactions: Q:I.98, Q:I.122, Q:Y.142, Q:Y.144, Q:Y.144, Q:V.168, Q:F.179, Q:F.179, Q:L.181, Q:L.184, Q:Y.190, Q:Y.190, Q:I.236 Water bridges: Q:L.100 W03.17: 14 residues within 4Å: Chain U: I.98, L.100, I.122, Y.142, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.214, L.217, I.236 14 PLIP interactions: 14 interactions with chain U Hydrophobic interactions: U:I.98, U:I.122, U:Y.142, U:Y.144, U:Y.144, U:V.168, U:F.179, U:F.179, U:L.181, U:L.184, U:Y.190, U:Y.190, U:I.236 Water bridges: U:L.100

6 x MYR: MYRISTIC ACID(Covalent)

MYR.3: 8 residues within 4Å: Chain D: G.1, N.30 Chain E: Y.6 Chain H: Y.26, F.27, I.29, Y.31 Ligands: MYR.6 2 PLIP interactions: 1 interactions with chain H, 1 interactions with chain E Hydrophobic interactions: H:Y.26 Hydrogen bonds: E:Y.6 MYR.6: 3 residues within 4Å: Chain H: G.1, N.30 Ligands: MYR.3 No protein-ligand interaction detected (PLIP) MYR.9: 3 residues within 4Å: Chain L: G.1, N.30 Ligands: MYR.12 No protein-ligand interaction detected (PLIP) MYR.12: 8 residues within 4Å: Chain I: Y.6 Chain L: Y.26, F.27, I.29, Y.31 Chain P: G.1, N.30 Ligands: MYR.9 1 PLIP interactions: 1 interactions with chain L Hydrophobic interactions: L:Y.26 MYR.15: 8 residues within 4Å: Chain T: G.1, N.30 Chain U: Y.6 Chain X: Y.26, F.27, I.29, Y.31 Ligands: MYR.18 2 PLIP interactions: 1 interactions with chain X, 1 interactions with chain U Hydrophobic interactions: X:Y.26 Hydrogen bonds: U:Y.6 MYR.18: 3 residues within 4Å: Chain X: G.1, N.30 Ligands: MYR.15 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hadfield, A.T. et al., Analysis of Three Structurally Related Antiviral Compounds in Complex with Human Rhinovirus 16. Proc.Natl.Acad.Sci.USA (1999)

Release Date

1999-07-20

Peptides

PROTEIN VP1: AEIMQU
PROTEIN VP2: BFJNRV
PROTEIN VP3: CGKOSW
PROTEIN 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

PROTEIN VP1

PROTEIN VP2

PROTEIN VP3

PROTEIN VP4

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