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

Human enterovirus 71 in complex with capsid binding inhibitor WIN51711

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-5-5-5-5-mer

Ligands

5 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 11 residues within 4Å: Chain A: I.111, D.112, F.135, Y.153, F.155, V.179, V.192, Y.201, W.203, N.228, F.233 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.111, A:F.135, A:F.135, A:Y.153, A:F.155, A:V.179, A:V.192, A:V.192, A:W.203, A:F.233 Hydrogen bonds: A:I.111, A:D.112, A:Q.202 SPH.9: 11 residues within 4Å: Chain E: I.111, D.112, F.135, Y.153, F.155, V.179, V.192, Y.201, W.203, N.228, F.233 13 PLIP interactions: 13 interactions with chain E Hydrophobic interactions: E:I.111, E:F.135, E:F.135, E:Y.153, E:F.155, E:V.179, E:V.192, E:V.192, E:W.203, E:F.233 Hydrogen bonds: E:I.111, E:D.112, E:Q.202 SPH.17: 11 residues within 4Å: Chain I: I.111, D.112, F.135, Y.153, F.155, V.179, V.192, Y.201, W.203, N.228, F.233 13 PLIP interactions: 13 interactions with chain I Hydrophobic interactions: I:I.111, I:F.135, I:F.135, I:Y.153, I:F.155, I:V.179, I:V.192, I:V.192, I:W.203, I:F.233 Hydrogen bonds: I:I.111, I:D.112, I:Q.202 SPH.25: 11 residues within 4Å: Chain M: I.111, D.112, F.135, Y.153, F.155, V.179, V.192, Y.201, W.203, N.228, F.233 13 PLIP interactions: 13 interactions with chain M Hydrophobic interactions: M:I.111, M:F.135, M:F.135, M:Y.153, M:F.155, M:V.179, M:V.192, M:V.192, M:W.203, M:F.233 Hydrogen bonds: M:I.111, M:D.112, M:Q.202 SPH.33: 11 residues within 4Å: Chain Q: I.111, D.112, F.135, Y.153, F.155, V.179, V.192, Y.201, W.203, N.228, F.233 13 PLIP interactions: 13 interactions with chain Q Hydrophobic interactions: Q:I.111, Q:F.135, Q:F.135, Q:Y.153, Q:F.155, Q:V.179, Q:V.192, Q:V.192, Q:W.203, Q:F.233 Hydrogen bonds: Q:I.111, Q:D.112, Q:Q.202

30 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: T.28, G.29, N.31, N.71 Ligand excluded by PLIP NA.3: 4 residues within 4Å: Chain A: S.56, T.58 Chain C: E.116, Q.221 Ligand excluded by PLIP NA.4: 7 residues within 4Å: Chain A: V.44, P.45, L.47, Q.48 Chain D: E.63, A.65, P.67 Ligand excluded by PLIP NA.5: 3 residues within 4Å: Chain A: E.164, S.165, S.168 Ligand excluded by PLIP NA.6: 5 residues within 4Å: Chain A: S.15, S.17 Chain B: S.40, Y.41, R.103 Ligand excluded by PLIP NA.7: 6 residues within 4Å: Chain A: Q.189 Chain C: V.20, S.21 Chain G: P.8 Chain K: E.5 Chain O: G.1 Ligand excluded by PLIP NA.10: 4 residues within 4Å: Chain E: T.28, G.29, N.31, N.71 Ligand excluded by PLIP NA.11: 4 residues within 4Å: Chain E: S.56, T.58 Chain G: E.116, Q.221 Ligand excluded by PLIP NA.12: 7 residues within 4Å: Chain E: V.44, P.45, L.47, Q.48 Chain H: E.63, A.65, P.67 Ligand excluded by PLIP NA.13: 3 residues within 4Å: Chain E: E.164, S.165, S.168 Ligand excluded by PLIP NA.14: 5 residues within 4Å: Chain E: S.15, S.17 Chain F: S.40, Y.41, R.103 Ligand excluded by PLIP NA.15: 6 residues within 4Å: Chain E: Q.189 Chain G: V.20, S.21 Chain K: P.8 Chain O: E.5 Chain S: G.1 Ligand excluded by PLIP NA.18: 4 residues within 4Å: Chain I: T.28, G.29, N.31, N.71 Ligand excluded by PLIP NA.19: 4 residues within 4Å: Chain I: S.56, T.58 Chain K: E.116, Q.221 Ligand excluded by PLIP NA.20: 7 residues within 4Å: Chain I: V.44, P.45, L.47, Q.48 Chain L: E.63, A.65, P.67 Ligand excluded by PLIP NA.21: 3 residues within 4Å: Chain I: E.164, S.165, S.168 Ligand excluded by PLIP NA.22: 5 residues within 4Å: Chain I: S.15, S.17 Chain J: S.40, Y.41, R.103 Ligand excluded by PLIP NA.23: 6 residues within 4Å: Chain C: G.1 Chain I: Q.189 Chain K: V.20, S.21 Chain O: P.8 Chain S: E.5 Ligand excluded by PLIP NA.26: 4 residues within 4Å: Chain M: T.28, G.29, N.31, N.71 Ligand excluded by PLIP NA.27: 4 residues within 4Å: Chain M: S.56, T.58 Chain O: E.116, Q.221 Ligand excluded by PLIP NA.28: 7 residues within 4Å: Chain M: V.44, P.45, L.47, Q.48 Chain P: E.63, A.65, P.67 Ligand excluded by PLIP NA.29: 3 residues within 4Å: Chain M: E.164, S.165, S.168 Ligand excluded by PLIP NA.30: 5 residues within 4Å: Chain M: S.15, S.17 Chain N: S.40, Y.41, R.103 Ligand excluded by PLIP NA.31: 6 residues within 4Å: Chain C: E.5 Chain G: G.1 Chain M: Q.189 Chain O: V.20, S.21 Chain S: P.8 Ligand excluded by PLIP NA.34: 4 residues within 4Å: Chain Q: T.28, G.29, N.31, N.71 Ligand excluded by PLIP NA.35: 4 residues within 4Å: Chain Q: S.56, T.58 Chain S: E.116, Q.221 Ligand excluded by PLIP NA.36: 7 residues within 4Å: Chain Q: V.44, P.45, L.47, Q.48 Chain T: E.63, A.65, P.67 Ligand excluded by PLIP NA.37: 3 residues within 4Å: Chain Q: E.164, S.165, S.168 Ligand excluded by PLIP NA.38: 5 residues within 4Å: Chain Q: S.15, S.17 Chain R: S.40, Y.41, R.103 Ligand excluded by PLIP NA.39: 6 residues within 4Å: Chain C: P.8 Chain G: E.5 Chain K: G.1 Chain Q: Q.189 Chain S: V.20, S.21 Ligand excluded by PLIP

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 6 residues within 4Å: Chain C: D.89, P.90, G.91, W.111, H.180, A.181 Ligand excluded by PLIP CL.16: 6 residues within 4Å: Chain G: D.89, P.90, G.91, W.111, H.180, A.181 Ligand excluded by PLIP CL.24: 6 residues within 4Å: Chain K: D.89, P.90, G.91, W.111, H.180, A.181 Ligand excluded by PLIP CL.32: 6 residues within 4Å: Chain O: D.89, P.90, G.91, W.111, H.180, A.181 Ligand excluded by PLIP CL.40: 6 residues within 4Å: Chain S: D.89, P.90, G.91, W.111, H.180, A.181 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Plevka, P. et al., Structure of Human Enterovirus 71 in Complex with a Capsid-Binding Inhibitor. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-03-27

Peptides

VP1: AEIMQ
VP2: BFJNR
VP3: CGKOS
VP4: DHLPT

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
A

I
A

M
A

Q
A

B
B

F
B

J
B

N
B

R
B

C
C

G
C

K
C

O
C

S
C

D
D

H
D

L
D

P
D

T
D

VP1

VP2

VP3

VP4

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