title: Photocleavable peptide-oligonucleotide conjugates for protein kinase assays by MALDI-TOF MS.
abstract: Robust methods for highly parallel, quantitative analysis of cellular protein tyrosine kinase activities may provide tools critically needed to decipher oncogenic signaling, discover new targeted drugs, diagnose cancer and monitor patients. Here, we describe proof-of-principle for a novel protein kinase assay with the potential to help overcome these challenges. MALDI-TOF mass spectrometry provides an ideal tool for label-free multiplexed analysis of peptide phosphorylation, but is poorly matched to homogeneous assays and complex samples. Thus, we conjugated a common oligonucleotide tag to multiple peptide substrates, offering efficient capture from solution-phase kinase reactions by annealing to the complementary sequence tethered to PEG-passivated superparamagnetic microparticles. To enable reversible conjugation, we developed a novel bifunctional cross-linker allowing simple and efficient preparation of photocleavable peptide-oligonucleotide conjugates. After washing away contaminants and following photorelease, MALDI-TOF analysis yielded relative phosphorylation of each peptide with high sensitivity and specificity. Validating the hybridization-mediated multiplexed kinase assay, when three peptide substrate-oligonucleotide conjugates were mixed with the tyrosine kinase c-Abl and ATP, we readily observed their differential phosphorylation yet measured a common IC(50) for the Abl kinase inhibitor imatinib. This new assay enables analysis of protein kinase activities in a multiplexed format amenable to screening inhibitors against multiple kinases in parallel, an important capability for drug discovery and predictive diagnostics.
authors: Department of Molecular Genetics and Cell Biology, Gordon Center for Integrative Sciences, W522A, The University of Chicago, Chicago, IL 60637, USA.
authors: Guangchang
authors: G
authors: Zhou
authors: Faraz
authors: F
authors: Khan
authors: Qing
authors: Q
authors: Dai
authors: Juliesta E
authors: JE
authors: Sylvester
authors: Stephen J
authors: SJ
authors: Kron
mesh_terms: D057075:Enzyme Assays / Q000379:methods*; D015394:Molecular Structure; D009841:Oligonucleotides / Q000737:chemistry*; D010455:Peptides / Q000737:chemistry* / Q000378:metabolism*; D010766:Phosphorylation; D010777:Photochemistry / Q000379:methods*; D011494:Protein Kinases / Q000378:metabolism*; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / Q000379:methods*
chemical_list: D009841:Oligonucleotides; D010455:Peptides; D011494:Protein Kinases