Proteomics

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Quantitative proteome profiling in HEK293 to validate RNAi targets

ABSTRACT: The solute carrier (SLC) transporter superfamily are important coordinators of metabolic and cellular homeostasis. Despite their importance for cellular homeostasis, SLCs remain a largely understudied group of proteins regarding their protein interactome. Thus, we conducted a largescale interactome proteomics study to characterize the interactome of roughly 400 of the 450 superfamily members. Within this study, we validated selected SLC-protein interactions by different assays (e.g.: protein stability, transporter activity assays), in combination with RNA interference (RNAi). For a small subset of the targeted interactors, we used full protein profiling by quantitative mass spectrometry to confirm alleviation of the protein abundance upon RNAi. To validate RNAi downregulation of gene expression on protein level, we assessed protein abundance of ZPFL1, LTN1 and NFXL1 after siRNA treatment.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Kidney Cell

SUBMITTER: Fabian Frommelt  

LAB HEAD: Giulio Superti-Furga

PROVIDER: PXD055192 | Pride | 2025-03-03

REPOSITORIES: Pride

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Dataset's files

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Action DRS
20240621_172405_20240621_RESOLUTE_full_proteome.sne Other
20240621_184330_20240621_RESOLUTE_full_proteome_Report.params Other
20240621_184330_20240621_RESOLUTE_full_proteome_Report.setup.txt Txt
20240621_184330_20240621_RESOLUTE_full_proteome_Report.tsv Tabular
2024_full_proteome_RNAi_DIA_protein_level.txt Txt
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Publications

Solute carrier (SLC) transporters form a protein superfamily that enables transmembrane transport of diverse substrates including nutrients, ions and drugs. There are about 450 different SLCs, residing in a variety of subcellular membranes. Loss-of-function of an unusually high proportion of SLC transporters is genetically associated with a plethora of human diseases, making SLCs a rapidly emerging but challenging drug target class. Knowledge of their protein environment may elucidate the molecu  ...[more]

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