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

SASDX84 – Peroxisomal targeting signal receptor Pex5 from P. pastoris

Peroxisomal targeting signal receptor
MWexperimental 68 kDa
MWexpected 65 kDa
VPorod 131 nm3
log I(s) 2.35×103 2.35×102 2.35×101 2.35×100
Peroxisomal targeting signal receptor small angle scattering data  s, nm-1
ln I(s)
Peroxisomal targeting signal receptor Guinier plot ln 2.35×103 Rg: 5.0 nm 0 (5.0 nm)-2 s2
(sRg)2I(s)/I(0)
Peroxisomal targeting signal receptor Kratky plot 1.104 0 3 sRg
p(r)
Peroxisomal targeting signal receptor pair distance distribution function Rg: 5.4 nm 0 Dmax: 21.4 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Peroxisomal targeting signal receptor OTHER [STATIC IMAGE] model
Peroxisomal targeting signal receptor OTHER [STATIC IMAGE] model
Peroxisomal targeting signal receptor MULTIFOXS model

Synchrotron SAXS data from solutions of Pex5 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 = 0.124026 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 77.00 μl sample at 8 mg/ml was injected at a 0.65 ml/min flow rate onto a GE Superdex 200 Increase 10/300 column at 20°C. 59 successive 1 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 from combined multi-angle laser light scattering (MALLS) and refractive index (RI) measurements. These MALLS/RI data, in addition to the unsubtracted SEC-SAXS data frames, MultiFoXS ensemble modelling, and final OLIGOMER volume-fraction weighted fit are made available in the full entry zip archive. The models displayed in this entry represent the volume-fraction weighted ensemble of Pex5 (top), the Rg frequency of each model in the limited ensemble 9-member pool (middle), and an individual model example (most frequent representative, Vf = 0.45).

Peroxisomal targeting signal receptor (Pex5)
Mol. type   Protein
Organism   Komagataella pastoris
Olig. state   Monomer
Mon. MW   65.2 kDa
 
UniProt   P33292 (1-576)
Sequence   FASTA