SMTL ID : 3vbf.4 (3 other biounits)

Crystal structure of formaldehyde treated human Enterovirus 71 (space group I23)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x SPH: SPHINGOSINE(Non-covalent)

SPH.1: 11 residues within 4Å: Chain A: I.111, D.112, I.113, F.135, F.155, M.195, W.203, N.228, M.230, F.233, A.275 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.111, A:I.111, A:F.135, A:F.155, A:W.203, A:N.228, A:F.233, A:F.233 Hydrogen bonds: A:D.112, A:I.113

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.2: 7 residues within 4Å: Chain A: P.25, A.26, T.28, Q.30 Chain C: Q.48, K.222 Chain D: P.39 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:P.25, A:Q.30, C:Q.48

2 x K: POTASSIUM ION(Non-covalent)

K.3: 4 residues within 4Å: Chain A: T.28, G.29, N.31, N.71 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:T.28, A:G.29, A:N.71 K.5: 3 residues within 4Å: Chain A: Q.189 Chain C: V.20, S.21 No protein-ligand interaction detected (PLIP)

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

NA.4: 8 residues within 4Å: Chain A: V.44, P.45, L.47, Q.48, N.57 Chain D: E.52, A.54, P.56 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.45, A:Q.48

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

CL.6: 6 residues within 4Å: Chain C: 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

Wang, X. et al., A sensor-adaptor mechanism for enterovirus uncoating from structures of EV71. Nat.Struct.Mol.Biol. (2012)

Release Date

2012-02-29

Peptides

Genome Polyprotein, capsid protein VP1: A
Genome Polyprotein, capsid protein VP2: B
Genome Polyprotein, capsid protein VP3: C
Genome Polyprotein, capsid protein VP4: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Genome Polyprotein, capsid protein VP1

Genome Polyprotein, capsid protein VP2

Genome Polyprotein, capsid protein VP3

Genome Polyprotein, capsid protein VP4

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