SMTL ID : 6ro0.1

CRYSTAL STRUCTURE OF GENETICALLY DETOXIFIED PERTUSSIS TOXIN GDPT.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

hetero-2-2-2-4-2-mer

Ligands

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: L.67, Y.141, N.148, A.149, R.151, R.216, S.217, A.219, I.221 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.149, A:R.216, A:S.217 GOL.2: 9 residues within 4Å: Chain B: I.40, T.41, Q.42, H.43, G.44, Y.71, L.72, V.75, F.113 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.41, B:Y.71 Water bridges: B:T.41, B:T.41, B:G.44, B:G.44 GOL.3: 11 residues within 4Å: Chain B: R.49, C.50, A.51, N.52, T.54, R.55, A.56, S.141, T.142 Chain D: I.140, R.141 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:R.49, B:C.50, B:A.56, D:I.140 GOL.4: 7 residues within 4Å: Chain B: A.135, T.136, R.137, Y.184 Chain D: Q.116, R.118, E.144 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain B Hydrogen bonds: D:Q.116, D:E.144, B:R.137, B:Y.184 Water bridges: B:G.187 GOL.5: 8 residues within 4Å: Chain B: P.164, Y.173 Chain D: D.97, R.100, P.101, G.102, S.103, S.104 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.100, D:R.100 Water bridges: D:S.103 GOL.6: 5 residues within 4Å: Chain A: Q.76, L.225, L.259, Y.261 Chain F: K.101 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain F Hydrogen bonds: A:Q.76, A:L.259, F:K.101, F:K.101 Water bridges: A:Y.261, A:Y.261 GOL.7: 10 residues within 4Å: Chain H: R.49, C.50, A.51, N.52, T.54, R.55, S.141, T.142 Chain J: I.140, R.141 6 PLIP interactions: 6 interactions with chain H Hydrogen bonds: H:R.49, H:N.52, H:T.54, H:T.142 Water bridges: H:K.53, H:S.141 GOL.8: 4 residues within 4Å: Chain H: A.186, G.187, I.188, S.189 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:G.187, H:S.189, H:S.189 GOL.9: 10 residues within 4Å: Chain H: P.164, Y.165 Chain J: K.96, D.97, R.100, P.101, G.102, S.103, S.104, E.107 4 PLIP interactions: 2 interactions with chain J, 2 interactions with chain H Hydrogen bonds: J:D.97, H:Y.165, H:Y.165 Water bridges: J:D.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ausar, S.F. et al., Genetically detoxified pertussis toxin displays near identical structure to its wild-type and exhibits robust immunogenicity. Commun Biol (2020)

Release Date

2020-06-03

Peptides

Pertussis toxin subunit 1: AG
Islet-activating protein S2: BH
Islet-activating protein S3: CI
Islet-activating protein S4: DEJK
Pertussis toxin subunit 5: FL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

G
G

B
B

H
H

C
C

I
I

D
D

E
E

J
J

K
K

F
F

L
L

Pertussis toxin subunit 1

Islet-activating protein S2

Islet-activating protein S3

Islet-activating protein S4

Pertussis toxin subunit 5