SMTL ID : 1c8m.3 (3 other biounits)

REFINED CRYSTAL STRUCTURE OF HUMAN RHINOVIRUS 16 COMPLEXED WITH VP63843 (PLECONARIL), AN ANTI-PICORNAVIRAL DRUG CURRENTLY IN CLINICAL TRIALS

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.3 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain E Metal complexes: A:H.134, E:H.134 ZN.3: 3 residues within 4Å: Chain A: H.134 Chain E: H.134 Ligands: ZN.1 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain E Metal complexes: A:H.134, E:H.134 ZN.5: 3 residues within 4Å: Chain I: H.134 Chain M: H.134 Ligands: ZN.7 2 PLIP interactions: 1 interactions with chain I, 1 interactions with chain M Metal complexes: I:H.134, M:H.134 ZN.7: 3 residues within 4Å: Chain I: H.134 Chain M: H.134 Ligands: ZN.5 2 PLIP interactions: 1 interactions with chain I, 1 interactions with chain M Metal complexes: I:H.134, M:H.134 ZN.9: 3 residues within 4Å: Chain Q: H.134 Chain U: H.134 Ligands: ZN.11 2 PLIP interactions: 1 interactions with chain U, 1 interactions with chain Q Metal complexes: U:H.134, Q:H.134 ZN.11: 3 residues within 4Å: Chain Q: H.134 Chain U: H.134 Ligands: ZN.9 2 PLIP interactions: 1 interactions with chain U, 1 interactions with chain Q Metal complexes: U:H.134, Q:H.134

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

W11.2: 21 residues within 4Å: Chain A: I.77, I.98, L.100, F.118, S.120, I.122, M.124, Y.142, M.143, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.192, N.212, M.214, L.217, H.238 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.77, A:I.98, A:I.98, A:L.100, A:F.118, A:I.122, A:Y.144, A:Y.144, A:L.181, A:L.184, A:Y.190, A:Y.190 Halogen bonds: A:Y.142 W11.4: 21 residues within 4Å: Chain E: I.77, I.98, L.100, F.118, S.120, I.122, M.124, Y.142, M.143, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.192, N.212, M.214, L.217, H.238 13 PLIP interactions: 13 interactions with chain E Hydrophobic interactions: E:I.77, E:I.98, E:I.98, E:L.100, E:F.118, E:I.122, E:Y.144, E:Y.144, E:L.181, E:L.184, E:Y.190, E:Y.190 Halogen bonds: E:Y.142 W11.6: 21 residues within 4Å: Chain I: I.77, I.98, L.100, F.118, S.120, I.122, M.124, Y.142, M.143, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.192, N.212, M.214, L.217, H.238 13 PLIP interactions: 13 interactions with chain I Hydrophobic interactions: I:I.77, I:I.98, I:I.98, I:L.100, I:F.118, I:I.122, I:Y.144, I:Y.144, I:L.181, I:L.184, I:Y.190, I:Y.190 Halogen bonds: I:Y.142 W11.8: 21 residues within 4Å: Chain M: I.77, I.98, L.100, F.118, S.120, I.122, M.124, Y.142, M.143, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.192, N.212, M.214, L.217, H.238 13 PLIP interactions: 13 interactions with chain M Hydrophobic interactions: M:I.77, M:I.98, M:I.98, M:L.100, M:F.118, M:I.122, M:Y.144, M:Y.144, M:L.181, M:L.184, M:Y.190, M:Y.190 Halogen bonds: M:Y.142 W11.10: 21 residues within 4Å: Chain Q: I.77, I.98, L.100, F.118, S.120, I.122, M.124, Y.142, M.143, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.192, N.212, M.214, L.217, H.238 13 PLIP interactions: 13 interactions with chain Q Hydrophobic interactions: Q:I.77, Q:I.98, Q:I.98, Q:L.100, Q:F.118, Q:I.122, Q:Y.144, Q:Y.144, Q:L.181, Q:L.184, Q:Y.190, Q:Y.190 Halogen bonds: Q:Y.142 W11.12: 21 residues within 4Å: Chain U: I.77, I.98, L.100, F.118, S.120, I.122, M.124, Y.142, M.143, Y.144, A.166, V.168, F.179, L.181, L.184, Y.190, M.192, N.212, M.214, L.217, H.238 13 PLIP interactions: 13 interactions with chain U Hydrophobic interactions: U:I.77, U:I.98, U:I.98, U:L.100, U:F.118, U:I.122, U:Y.144, U:Y.144, U:L.181, U:L.184, U:Y.190, U:Y.190 Halogen bonds: U:Y.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

CHAKRAVARTY, S. et al., THE REFINED STRUCTURE OF A PICORNAVIRUS INHIBITOR CURRENTLY IN CLINICAL TRIALS, WHEN COMPLEXED WITH HUMAN RHINOVIRUS 16. to be published

Release Date

2000-11-22

Peptides

HUMAN RHINOVIRUS 16 COAT PROTEIN: AEIMQU
HUMAN RHINOVIRUS 16 COAT PROTEIN: BFJNRV
HUMAN RHINOVIRUS 16 COAT PROTEIN: CGKOSW
HUMAN RHINOVIRUS 16 COAT PROTEIN: 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 16 COAT PROTEIN

HUMAN RHINOVIRUS 16 COAT PROTEIN

HUMAN RHINOVIRUS 16 COAT PROTEIN

HUMAN RHINOVIRUS 16 COAT PROTEIN

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