RT Journal Article
SR Electronic
T1 Pull-down Assay on Streptavidin Beads and Surface Plasmon Resonance Chips for SWATH-MS-based Interactomics
JF Cancer Genomics - Proteomics
JO Cancer Genomics Proteomics
FD International Institute of Anticancer Research
SP 395
OP 404
DO 10.21873/cgp.20098
VO 15
IS 5
A1 MARYÁŠ, JOSEF
A1 FAKTOR, JAKUB
A1 ČÁPKOVÁ, LENKA
A1 MÜLLER, PETR
A1 SKLÁDAL, PETR
A1 BOUCHAL, PAVEL
YR 2018
UL http://cgp.iiarjournals.org/content/15/5/395.abstract
AB Background/Aim: Pul-down assay is a popular in vitro method for identification of physical interactors of selected proteins. Here, for the first time, we compared three conventional variants of pull-down assay with the streptavidin-modified surface plasmon resonance (SPR) chips for the detection of PDZ and LIM domain protein 2 (PDLIM2) interaction partners. Materials and Methods: PDLIM2 protein–protein interactions were analysed by three variants of pull-down assay on streptavidin beads using LC-MS/MS in “Sequential Window Acquisition of all Theoretical fragment ion spectra (SWATH)” mode and compared with LC-SWATH-MS/MS data from SPR chips. Results: The results showed that (i) the use of SPR chip led to comparable data compared to on-column streptavidin beads, (ii) gravity flow and microflow in wash and elution steps provided better results than centrifugation, and (iii) type and concentration of detergent did not significantly affect the interactome data of cancer-associated PDLIM2. Conclusion: Our study supports further application of SPR-based affinity purification with SWATH mass spectrometry for reproducible and controlled characterization of cancer-associated interactomes.