SMTL ID : 6i2k.1 (3 other biounits)

Structure of EV71 complexed with its receptor SCARB2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.1: 7 residues within 4Å: Chain E: N.44, V.45, V.62, L.108, I.109, R.110, T.146 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 5 residues within 4Å: Chain E: L.70, Y.93, V.94, W.154, N.182 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 1 residues within 4Å: Chain E: N.280 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.3: 7 residues within 4Å: Chain E: K.220, M.223, N.225, Y.243, R.251, S.252, D.283 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:K.220, E:D.283

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN-MAN.5: 12 residues within 4Å: Chain B: E.72, S.74, E.159 Chain E: E.121, Q.124, V.125, H.126, I.289, L.295, N.301, I.304, Y.364 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.72, B:S.74

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.6: 9 residues within 4Å: Chain E: Q.39, Y.41, E.61, D.338, H.339, R.358, Y.386, N.388, S.390 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:Y.41

1 x 906: 1-(2-aminopyridin-4-yl)-3-[(3S)-5-{4-[(E)-(ethoxyimino)methyl]phenoxy}-3-methylpentyl]imidazolidin-2-one(Non-covalent)

906.7: 22 residues within 4Å: Chain A: I.111, D.112, I.113, T.114, F.131, F.135, F.137, Y.153, F.155, P.177, S.178, V.179, V.190, V.192, M.195, Y.201, Q.202, W.203, N.228, M.253, A.275 Chain C: I.24 16 PLIP interactions: 15 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:I.111, A:T.114, A:F.131, A:F.135, A:F.135, A:F.155, A:F.155, A:V.179, A:V.192, A:W.203, A:N.228, C:I.24 Hydrogen bonds: A:I.113, A:T.114, A:T.114 pi-Stacking: A:F.135

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.8: 1 residues within 4Å: Chain E: N.21 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.21 NAG.9: 4 residues within 4Å: Chain E: L.192, S.197, N.200, V.205 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:L.192, E:V.205 Hydrogen bonds: E:N.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, D. et al., Unexpected mode of engagement between enterovirus 71 and its receptor SCARB2. Nat Microbiol (2019)

Release Date

2018-11-28

Peptides

Polyprotein: A
Polyprotein: B
Polyprotein: C
Polyprotein: D
Lysosome membrane protein 2: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Polyprotein

Polyprotein

Polyprotein

Polyprotein

Lysosome membrane protein 2

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