Structure of Pex8 in complex with peroxisomal receptor Pex5 reveals its essential role in peroxisomal cargo translocation

Ekal L Wendscheck D, David Y, Chojnowski G, Jeffries C, Mullapudi E, Schuldiner M, Warscheid B, Zalckvar E, Wilmanns M, (2025) DOI

SASDX94 – Peroxisomal biogenesis factor 8 (Pex8) from P. pastoris

Peroxisomal biogenesis factor 8
MWexperimental 74 kDa
MWexpected 78 kDa
VPorod 117 nm3
log I(s) 1.74×10-2 1.74×10-3 1.74×10-4 1.74×10-5
Peroxisomal biogenesis factor 8 small angle scattering data  s, nm-1
ln I(s)
Peroxisomal biogenesis factor 8 Guinier plot ln 1.74×10-2 Rg: 3.6 nm 0 (3.6 nm)-2 s2
(sRg)2I(s)/I(0)
Peroxisomal biogenesis factor 8 Kratky plot 1.104 0 3 sRg
p(r)
Peroxisomal biogenesis factor 8 pair distance distribution function Rg: 3.8 nm 0 Dmax: 13 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Peroxisomal biogenesis factor 8 MULTIFOXS model

Synchrotron SAXS data from solutions of Pex8 in 50 mM HEPES, 150 mM NaCl, 3% v/v glycerol, 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 = 0.123982 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 4 mg/ml was injected at a 0.60 ml/min flow rate onto a GE Superdex 200 Increase 10/300 column at 20°C. 46 successive 0.500 second frames were collected through the main SEC elution peak. 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 was estimated using Bayesian inference in the MW rage of 67-75 kDa (datmw tool, ATSAS 3; GNOM.out file input). MultiFoXS modelling routines and the unsubtracted SEC-SAXS data frames are made available in the full entry zip archive.

Peroxisomal biogenesis factor 8 (Pex8)
Mol. type   Protein
Organism   Komagataella pastoris
Olig. state   Monomer
Mon. MW   78.0 kDa
 
UniProt   Q01962 (33-713)
Sequence   FASTA