Methionine gamma lyase fused with S3 domain VGF forms octamers and adheres to tumor cells via binding EGFR

Bondarev N, Bagaeva D, Bazhenov S, Buben M, Bulushova N, Ryzhykau Y Okhrimenko I, Zagryadskaya Y, Maslov I, Anisimova N, Sokolova D, Kuklin A, Pokrovsky V, Manukhov I, Biochemical and Biophysical Research Communications :149319 (2023) DOI

SASDPS5 – L-methionine gamma-lyase from Clostridium sporogenes fused with S3 domain of the Vaccinia virus growth factor

L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain
MWexperimental 298 kDa
MWexpected 183 kDa
VPorod 303 nm3
log I(s) 2.32×100 2.32×10-1 2.32×10-2 2.32×10-3
L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain small angle scattering data  s, nm-1
ln I(s)
L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain Guinier plot ln 2.32×100 Rg: 5.2 nm 0 (5.2 nm)-2 s2
(sRg)2I(s)/I(0)
L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain Kratky plot 1.104 0 √3 sRg
p(r)
L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain pair distance distribution function Rg: 5.1 nm 0 Dmax: 17.3 nm

Data validation

Fits and models

log I(s)
 s, nm-1
L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain CHIMERA model
L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain CHIMERA model
SANS data from solutions of L-methionine gamma-lyase from Clostridium sporogenes fused with S3 domain of the vaccinia virus growth factor in PBS-D2O (137 mM NaCl, 2.7 mM KCl, 10 mM Na2HPO4, 1.8 mM KH2PO4 (D2O buffer), pD 7.4) performed on the YuMO SANS TOF spectrometer (IBR-2: Frank Laboratory of Neutron Physics, Joint Institute for Nuclear Research; Dubna, Russian Federation) with a two He3-fulfilled, 8 independent wire detector system (sample-detector distances of 4.5 m and 12.97 m). The wavelengths used are from 0.05 to 0.8 nm, the contributions of which are separated using time-of-flight technology. One solute concentration of 10.00 mg/ml was measured at 20°C. 9000 successive 0.207 second frames were collected.

The protein of study is L-methionine gamma lyase from Clostridium sporogenes (UniProt ID A0A1L3NFS6; https://www.uniprot.org/uniprotkb/A0A1L3NFS6/entry) fused with VGF S3 domain (UniProt ID A0A1P9FG28; https://www.uniprot.org/uniprotkb/A0A1P9FG28/entry). The volume fractions of tetramers and octamers in solution are 37% and 63%, respectively.

L-methionine gamma-lyase from Clostridium sporogenes fused with VGF S3 domain (Cs-MGL-S3)
Mol. type   Protein
Organism   Clostridium sporogenes
Olig. state   Tetramer
Mon. MW   45.8 kDa
Sequence   FASTA
 
PDB ID   5DX5
 
PDB ID   5DX5