ArticleMolecular & cellular proteomics : MCP2020
Molecular Dynamics Simulation-assisted Ionic Liquid Screening for Deep Coverage Proteome Analysis.
Article in Molecular & cellular proteomics : MCP, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 34 citations in OpenAlex.
- Orthogonal Ionic Liquid-Based Extraction Strategy Enables Amyloid-Specific Profiling of Aggregate Proteome.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Crosslinker nanocarrier-based intratumoral delivery for protein complex mapping in mitochondria of live tumor-bearing mice.Chemical science · 2026Article
- Membrane-targeted schiff base derivatives overcome MRSA resistance through phosphatidylglycerol binding and ROS-mediated killing.Frontiers in chemistry · 2026Article
- Metal Organic Layers-Based Sample Preparation Method for Membrane Proteome Analysis.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Targeted Analysis of Mitochondrial Protein Conformations and Interactions by Endogenous ROS-Triggered Cross-Linker Release.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Engineering Yeast Peroxisomes for α-Bisabolene Production from Sole Methanol with the Aid of Proteomic Analysis.JACS Au · 2024Article
- Metal organic layers enabled cell surface engineering coupling biomembrane fusion for dynamic membrane proteome profiling.Chemical science · 2023Article
- Targeted cross-linker delivery for the in situ mapping of protein conformations and interactions in mitochondria.Nature communications · 2023Article
- Comparative proteomics analysis ofSynthetic and systems biotechnology · 2022Article
- Exogenous artificial DNA forms chromatin structure with active transcription in yeast.Science China. Life sciences · 2022Article
- Two-Dimensional Fractionation Method for Proteome-Wide Cross-Linking Mass Spectrometry Analysis.Analytical chemistry · 2022Article
- AKR1C3-dependent lipid droplet formation confers hepatocellular carcinoma cell adaptability to targeted therapy.Theranostics · 2022Article
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Authors and funding
11 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In-depth coverage of proteomic analysis could enhance our understanding to the mechanism of the protein functions. Unfortunately, many highly hydrophobic proteins and low-abundance proteins, which play critical roles in signaling networks, are easily lost during sample preparation, mainly attributed to the fact that very few extractants can simultaneously satisfy the requirements on strong solubilizing ability to membrane proteins and good enzyme compatibility. Thus, it is urgent to screen out ideal extractant from the huge compound libraries in a fast and effective way. Herein, by investigating the interior mechanism of extractants on the membrane proteins solubilization and trypsin compatibility, a molecular dynamics simulation system was established as complement to the experimental procedure to narrow down the scope of candidates for proteomics analysis. The simulation data shows that the van der Waals interaction between cation group of ionic liquid and membrane protein is the dominant factor in determining protein solubilization. In combination with the experimental data, 1-dodecyl-3-methylimidazolium chloride (C12Im-Cl) is on the shortlist for the suitable candidates from comprehensive aspects. Inspired by the advantages of C12Im-Cl, an ionic liquid-based filter-aided sample preparation (
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