SMTL ID : 3jbe.3 (3 other biounits)

Complex of poliovirus with VHH PVSS8A

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 4.20 Å

Oligo State

hetero-6-6-6-6-6-mer

Ligands

6 x PLM: PALMITIC ACID(Non-covalent)

PLM.1: 15 residues within 4Å: Chain A: I.110, Y.112, F.130, M.132, L.134, Y.159, I.194, V.196, V.199, Y.205, S.206, H.207, N.235, F.237, L.240 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:I.110, A:I.110, A:Y.112, A:Y.112, A:F.130, A:Y.159, A:Y.159, A:Y.159, A:I.194, A:V.196, A:V.199, A:Y.205, A:Y.205, A:Y.205, A:N.235, A:F.237, A:F.237, A:F.237, A:F.237, A:L.240 Hydrogen bonds: A:Y.112, A:S.206 Salt bridges: A:H.207 PLM.2: 15 residues within 4Å: Chain F: I.110, Y.112, F.130, M.132, L.134, Y.159, I.194, V.196, V.199, Y.205, S.206, H.207, N.235, F.237, L.240 23 PLIP interactions: 23 interactions with chain F Hydrophobic interactions: F:I.110, F:I.110, F:Y.112, F:Y.112, F:F.130, F:Y.159, F:Y.159, F:Y.159, F:I.194, F:V.196, F:V.199, F:Y.205, F:Y.205, F:Y.205, F:N.235, F:F.237, F:F.237, F:F.237, F:F.237, F:L.240 Hydrogen bonds: F:Y.112, F:S.206 Salt bridges: F:H.207 PLM.3: 15 residues within 4Å: Chain K: I.110, Y.112, F.130, M.132, L.134, Y.159, I.194, V.196, V.199, Y.205, S.206, H.207, N.235, F.237, L.240 23 PLIP interactions: 23 interactions with chain K Hydrophobic interactions: K:I.110, K:I.110, K:Y.112, K:Y.112, K:F.130, K:Y.159, K:Y.159, K:Y.159, K:I.194, K:V.196, K:V.199, K:Y.205, K:Y.205, K:Y.205, K:N.235, K:F.237, K:F.237, K:F.237, K:F.237, K:L.240 Hydrogen bonds: K:Y.112, K:S.206 Salt bridges: K:H.207 PLM.4: 15 residues within 4Å: Chain P: I.110, Y.112, F.130, M.132, L.134, Y.159, I.194, V.196, V.199, Y.205, S.206, H.207, N.235, F.237, L.240 23 PLIP interactions: 23 interactions with chain P Hydrophobic interactions: P:I.110, P:I.110, P:Y.112, P:Y.112, P:F.130, P:Y.159, P:Y.159, P:Y.159, P:I.194, P:V.196, P:V.199, P:Y.205, P:Y.205, P:Y.205, P:N.235, P:F.237, P:F.237, P:F.237, P:F.237, P:L.240 Hydrogen bonds: P:Y.112, P:S.206 Salt bridges: P:H.207 PLM.5: 15 residues within 4Å: Chain U: I.110, Y.112, F.130, M.132, L.134, Y.159, I.194, V.196, V.199, Y.205, S.206, H.207, N.235, F.237, L.240 23 PLIP interactions: 23 interactions with chain U Hydrophobic interactions: U:I.110, U:I.110, U:Y.112, U:Y.112, U:F.130, U:Y.159, U:Y.159, U:Y.159, U:I.194, U:V.196, U:V.199, U:Y.205, U:Y.205, U:Y.205, U:N.235, U:F.237, U:F.237, U:F.237, U:F.237, U:L.240 Hydrogen bonds: U:Y.112, U:S.206 Salt bridges: U:H.207 PLM.6: 15 residues within 4Å: Chain Z: I.110, Y.112, F.130, M.132, L.134, Y.159, I.194, V.196, V.199, Y.205, S.206, H.207, N.235, F.237, L.240 23 PLIP interactions: 23 interactions with chain Z Hydrophobic interactions: Z:I.110, Z:I.110, Z:Y.112, Z:Y.112, Z:F.130, Z:Y.159, Z:Y.159, Z:Y.159, Z:I.194, Z:V.196, Z:V.199, Z:Y.205, Z:Y.205, Z:Y.205, Z:N.235, Z:F.237, Z:F.237, Z:F.237, Z:F.237, Z:L.240 Hydrogen bonds: Z:Y.112, Z:S.206 Salt bridges: Z:H.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Strauss, M. et al., Five of Five VHHs Neutralizing Poliovirus Bind the Receptor-Binding Site. J.Virol. (2016)

Release Date

2016-01-27

Peptides

Capsid protein VP1: AFKPUZ
Capsid protein VP2: BGLQV0
Capsid protein VP3: CHMRW1
Capsid protein VP4: DINSX2
nanobody VHH PVSS8A: EJOTY3

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

F
1

K
1

P
1

U
1

Z
1

B
2

G
2

L
2

Q
2

V
2

0
2

C
3

H
3

M
3

R
3

W
3

1
3

D
4

I
4

N
4

S
4

X
4

2
4

E
7

J
7

O
7

T
7

Y
7

3
7

Capsid protein VP1

Capsid protein VP2

Capsid protein VP3

Capsid protein VP4

nanobody VHH PVSS8A

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