Preorganized cyclic modules facilitate the self-assembly of protein nanostructures

Snoj J, Lapenta F, Jerala R, Chemical Science (2024) DOI

SASDUS2 – SB24-ncn (coiled coil protein origami irregular octahedron assembled from 2 linear chains and 1 cyclic chain)

SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments)
SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments)
cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments)
MWexperimental 104 kDa
MWexpected 109 kDa
VPorod 428 nm3
log I(s) 5.14×103 5.14×102 5.14×101 5.14×100
SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) small angle scattering data  s, nm-1
ln I(s)
SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) Guinier plot ln 5.14×103 Rg: 4.7 nm 0 (4.7 nm)-2 s2
(sRg)2I(s)/I(0)
SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) Kratky plot 1.104 0 3 sRg
p(r)
SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) pair distance distribution function Rg: 4.7 nm 0 Dmax: 14.7 nm

Data validation


Fits and models


log I(s)
 s, nm-1
SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) COOT model

Synchrotron SAXS data from solutions of SB24-ncn in 20 mM Tris, 150 mM NaCL, 3% glycerol, 1mM TCEP, pH 7.5 were collected on the EMBL P12 beam line at PETRA III (DESY; Hamburg, Germany) using a Pilatus 6M detector at a sample-detector distance of 3 m and at a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 90.00 μl sample at 16.2 mg/ml was injected at a 0.75 ml/min flow rate onto a Cytiva Superdex 200 10/300 column at 20°C. 2400 successive 0.995 second frames were collected through the entire SEC elution. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.

The experimental molecular weight quoted in this entry was evaluated using SEC-MALS combined with the refractive index (RI) measured before the SAXS measurements.

SB9b (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) (SB9b)
Mol. type   Protein
Organism   synthetic construct
Olig. state   Monomer
Mon. MW   42.2 kDa
Sequence   FASTA
 
SB9c (Linear coiled-coil protein origami structure consisting of 9 coiled-coil forming segments) (SB9c)
Mol. type   Protein
Organism   synthetic construct
Olig. state   Monomer
Mon. MW   40.6 kDa
Sequence   FASTA
 
cySB6 (Cyclic coiled-coil protein origami structure consisting of 6 coiled-coil forming segments) (cySB6)
Mol. type   Protein
Organism   synthetic construct
Olig. state   Monomer
Mon. MW   25.8 kDa
Sequence   FASTA