ArticleAnalytical chemistry2013
Proteome-wide discovery and characterizations of nucleotide-binding proteins with affinity-labeled chemical probes.
Article in Analytical chemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 30 citations in OpenAlex.
- Regulation of RNA-binding proteins by small biomolecules.Nature reviews. Molecular cell biology · 2026Review
- ATP-sensitive peptide-based coacervates for intracellular delivery of therapeutic oligonucleotides.Frontiers in molecular biosciences · 2026Article
- Activity-based annotation: the emergence of systems biochemistry.Trends in biochemical sciences · 2022Review
- Targeted Proteomic Approaches for Proteome-Wide Characterizations of the AMP-Binding Capacities of Kinases.Journal of proteome research · 2022Article
- Targeted Quantitative Profiling of GTP-Binding Proteins Associated with Metastasis of Melanoma Cells.Journal of proteome research · 2021Article
- GLOBAL AND TARGETED PROFILING OF GTP-BINDING PROTEINS IN BIOLOGICAL SAMPLES BY MASS SPECTROMETRY.Mass spectrometry reviews · 2021Review
- Chemical Proteomic Profiling of the Interacting Proteins of Isoprenoid Pyrophosphates.Analytical chemistry · 2020Article
- Quantitative Interrogation of the Human Kinome Perturbed by Two BRAF Inhibitors.Journal of proteome research · 2019Article
- Chemogenomic profiling to understand the antifungal action of a bioactive aurone compound.PloS one · 2019Article
- Targeted Quantitative Profiling of GTP-Binding Proteins in Cancer Cells Using Isotope-Coded GTP Probes.Analytical chemistry · 2018Article
- A Global Survey of ATPase Activity inMolecular & cellular proteomics : MCP · 2018Article
- An efficient proteome-wide strategy for discovery and characterization of cellular nucleotide-protein interactions.PloS one · 2018Article
- Covalent Guanosine Mimetic Inhibitors of G12C KRAS.ACS medicinal chemistry letters · 2017Article
- A High-Throughput Targeted Proteomic Approach for Comprehensive Profiling of Methylglyoxal-Induced Perturbations of the Human Kinome.Analytical chemistry · 2016Article
- Global discovery of protein kinases and other nucleotide-binding proteins by mass spectrometry.Mass spectrometry reviews · 2016Review
- Characterization of the Saccharomyces cerevisiae ATP-Interactome using the iTRAQ-SPROX Technique.Journal of the American Society for Mass Spectrometry · 2016Article
- Profiling global kinome signatures of the radioresistant MCF-7/C6 breast cancer cells using MRM-based targeted proteomics.Journal of proteome research · 2015Article
- Application of adenosine triphosphate affinity probe and scheduled multiple-reaction monitoring analysis for profiling global kinome in human cells in response to arsenite treatment.Analytical chemistry · 2014Article
- Comprehensive characterization of (S)GTP-binding proteins by orthogonal quantitative (S)GTP-affinity profiling and (S)GTP/GTP competition assays.Analytical chemistry · 2014Article
- A targeted quantitative proteomics strategy for global kinome profiling of cancer cells and tissues.Molecular & cellular proteomics : MCP · 2014Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Nucleotide-binding proteins play pivotal roles in many cellular processes including cell signaling. However, targeted studies of the subproteome of nucleotide-binding proteins, especially protein kinases and GTP-binding proteins, remain challenging. Here, we report a general strategy in using affinity-labeled chemical probes to enrich, identify, and quantify ATP- and GTP-binding proteins in the entire human proteome. Our results revealed that the ATP/GTP affinity probes facilitated the identification of 100 GTP-binding proteins and 206 kinases with the use of low milligram quantities of lysate of HL-60 cells. In combination with the use of the stable isotope labeling by amino acids in cell culture-based quantitative proteomics method, we assessed the ATP/GTP binding selectivities of nucleotide-binding proteins at the global proteome scale. Our results confirmed known and, more importantly, unveiled new ATP/GTP-binding preferences of hundreds of nucleotide-binding proteins. Additionally, our strategy led to the identification of three and one unique nucleotide-binding motifs for kinases and GTP-binding proteins, respectively, and the characterizations of the nucleotide-binding selectivities of individual motifs. Our strategy for capturing and characterizing ATP/GTP-binding proteins should be generally applicable for those proteins that can interact with other nucleotides.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.