SMTL ID : 1c8m.2 (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

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-5-5-5-5-mer

Ligands

5 x ZN: ZINC ION(Non-covalent)

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

5 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

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: AEIMQ
HUMAN RHINOVIRUS 16 COAT PROTEIN: BFJNR
HUMAN RHINOVIRUS 16 COAT PROTEIN: CGKOS
HUMAN RHINOVIRUS 16 COAT PROTEIN: DHLPT

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

E
1

I
1

M
1

Q
1

B
2

F
2

J
2

N
2

R
2

C
3

G
3

K
3

O
3

S
3

D
4

H
4

L
4

P
4

T
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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