Asymmetric horseshoe-like assembly of peroxisomal yeast oxalyl-CoA synthetase.

Bürgi J, Lill P, Giannopoulou EA, Jeffries CM, Chojnowski G, Raunser S, Gatsogiannis C, Wilmanns M, Biol Chem (2023) Europe PMC

SASDPV3 – Wild type oxalyl-CoA synthetase Pcs60p (2.5 mg/ml) - hexamer-tetramer equilibrium

Oxalate--CoA ligase
MWexperimental 284 kDa
MWexpected 363 kDa
VPorod 565 nm3
log I(s) 1.33×10-1 1.33×10-2 1.33×10-3 1.33×10-4
Oxalate--CoA ligase small angle scattering data  s, nm-1
ln I(s)
Oxalate--CoA ligase Guinier plot ln 1.34×10-1 Rg: 4.7 nm 0 (4.7 nm)-2 s2
(sRg)2I(s)/I(0)
Oxalate--CoA ligase Kratky plot 1.104 0 √3 sRg
p(r)
Oxalate--CoA ligase pair distance distribution function Rg: 4.6 nm 0 Dmax: 13.2 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Oxalate--CoA ligase PYMOL model
Oxalate--CoA ligase PYMOL model
Synchrotron SAXS data from solutions of wild type Pcs60p in 50 mM Hepes, 150 mM NaCl, 0.5 mM 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). One solute concentration of 2.50 mg/ml was measured at 10°C. 30 successive 0.095 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.

At 2.5 mg/ml, the approximate volume fraction of hexamer is 0.56 and tetramer, 0.44. An additional dataset measured at high protein concentration (7 mg/ml - with repulsive interparticle interference), and the corresponding OLIGOMER fit is made available in the full-entry zip archive.

Oxalate--CoA ligase (Pcs60)
Mol. type   Protein
Organism   Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Olig. state   Other
Mon. MW   60.5 kDa
 
UniProt   P38137 (1-543)
Sequence   FASTA