A5049147819- Biotin and Related Studies
- Mitochondrial Function and Pathology
- Click Chemistry and Applications
- Advanced biosensing and bioanalysis techniques
- Molecular Sensors and Ion Detection
- Electrochemical sensors and biosensors
- RNA regulation and disease
- Monoclonal and Polyclonal Antibodies Research
- RNA modifications and cancer
- Adipose Tissue and Metabolism
- RNA Research and Splicing
- Cellular transport and secretion
- Advanced Biosensing Techniques and Applications
- bioluminescence and chemiluminescence research
- ATP Synthase and ATPases Research
- RNA and protein synthesis mechanisms
- Endoplasmic Reticulum Stress and Disease
- Lipid Membrane Structure and Behavior
- Luminescence and Fluorescent Materials
- Metabolomics and Mass Spectrometry Studies
- Ubiquitin and proteasome pathways
- Neonatal Health and Biochemistry
- Advanced Proteomics Techniques and Applications
- Advanced Fluorescence Microscopy Techniques
- RNA Interference and Gene Delivery
Seoul National University
2013-2025
Ulsan National Institute of Science and Technology
2013-2022
Government of the Republic of Korea
2019-2020
Seoul Institute
2019
Massachusetts Institute of Technology
2013-2014
Universidad de Extremadura
2009
Washington State University
2009
Chonnam National University
2008
Microscopy and mass spectrometry (MS) are complementary techniques: The former provides spatiotemporal information in living cells, but only for a handful of recombinant proteins at time, whereas the latter can detect thousands endogenous simultaneously, lysed samples. Here, we introduce technology that combines these strengths by offering spatially temporally resolved proteomic maps within cells. Our method relies on genetically targetable peroxidase enzyme biotinylates nearby proteins,...
Protein inactivation by reactive oxygen species (ROS) such as singlet (1O2) and superoxide radical (O2•–) is considered to trigger cell death pathways associated with protein dysfunction; however, the detailed mechanisms direct involvement in photodynamic therapy (PDT) have not been revealed. Herein, we report Ir(III) complexes designed for ROS generation through a rational strategy investigate modifications ROS. The are effective PDT agents at low concentrations low-energy irradiation (≤ 1...
Significance Most of the thousands proteins that comprise a human cell have specific subcellular localization patterns essential for their function. “Proximity labeling” (PL) is method mapping endogenous cellular on proteome-wide scale. To improve specificity and versatility PL, we developed split-TurboID, promiscuous biotinylating enzyme split into two inactive fragments. The fragments are coexpressed in cells brought together by drug, protein–protein interaction, or organelle contact to...
Achieving spatiotemporal control of molecular self-assembly associated with actuation biological functions inside living cells remains a challenge owing to the complexity cellular environments and lack characterization tools. We present, for first time, organelle-localized peptide amphiphile as powerful strategy controlling fate. A phenylalanine dipeptide (FF) mitochondria-targeting moiety, triphenyl phosphonium (Mito-FF), preferentially accumulates mitochondria reaches critical aggregation...
The mitochondria-associated membrane (MAM) has emerged as a cellular signaling hub regulating various processes. However, its molecular components remain unclear owing to lack of reliable methods purify the intact MAM proteome in physiological context. Here, we introduce Contact-ID, split-pair system BioID with strong activity, for identification live cells. Contact-ID specifically labeled proteins proximal contact sites endoplasmic reticulum (ER) and mitochondria, thereby identified 115...
Staphylococcus aureus frequently invades the human bloodstream, leading to life threatening bacteremia and often secondary foci of infection. Failure antibiotic therapy eradicate infection is described; in some cases associated with altered S. antimicrobial resistance or small colony variant (SCV) phenotype. Newer antimicrobials, such as linezolid, remain last available for patients multi-resistant infections. Using comparative functional genomics we investigated molecular determinants SCV...
Deciphering the sub-compartmental location of a given protein interest may help explain its physiological function, but it can be challenging to do using optical or biochemical methods. Imaging with electron microscopy (EM) provide highly resolved mapping proteins; however, EM requires complex sample preparation and specialized facility. Here, we use engineered ascorbate peroxidase (APEX)-generated molecular labeling patterns information regarding intracellular microenvironments in living...
Mitochondria-associated endoplasmic reticulum membrane (MAM) is a structural link between mitochondria and (ER). MAM regulates Ca
Expression of human mitochondrial DNA is indispensable for proper function the oxidative phosphorylation machinery. The genome encodes 22 tRNAs, 2 rRNAs and 11 mRNAs their post-transcriptional modification constitutes one key regulatory steps during gene expression. Cytosine-5 methylation (m5C) has been detected in transcriptome, however its biogenesis not investigated details. Mammalian NOP2/Sun RNA Methyltransferase Family Member (NSUN2) characterized as an methyltransferase introducing...
Herein, a small-molecule fluorescent sensor array for rapid identification of seven heavy metal ions was designed and synthesized, with its sensing mechanism mimicking that tongue. The photoinduced electron transfer intramolecular charge result in combinatorial interactions between ions, which lead to diversified fluorescence wavelength shifts emission intensity changes. Upon principle component analysis (PCA), this renders clear each ion on 3D spatial dispersion graph. Further exploration...
The inner mitochondrial membrane (IMM) proteome plays a central role in maintaining physiology and cellular metabolism. Various important biochemical reactions such as oxidative phosphorylation, metabolite production, biogenesis are conducted by the IMM proteome, mitochondria-targeted therapeutics have been developed for proteins, which is deeply related various human metabolic diseases including cancer neurodegenerative diseases. However, topology of remains largely unclear because lack...
Secretory proteins are an essential component of interorgan communication networks that regulate animal physiology. Current approaches for identifying secretory from specific cell and tissue types largely limited to in vitro or ex vivo models which often fail recapitulate biology. As such, there is mounting interest developing analytical tools can provide accurate information on the origin, identity, spatiotemporal dynamics proteins. Here, we describe iSLET (in situ protein Labeling via...
Abstract Mitochondrial oxidation-induced cell death, a physiological process triggered by various cancer therapeutics to induce oxidative stress on tumours, has been challenging investigate owing the difficulties in generating mitochondria-specific and monitoring mitochondrial responses simultaneously. Accordingly, best of our knowledge, relationship between protein oxidation via subsequent death-related biological phenomena not defined. Here, we developed multifunctional iridium(III)...
ConspectusProximity labeling can be defined as an enzymatic "in-cell" chemical reaction that catalyzes the proximity-dependent modification of biomolecules in live cells. Since modified proteins isolated and identified via mass spectrometry, this method has been successfully utilized for characterization local proteomes such sub-mitochondrial proteome at membrane contact sites, or spatiotemporal interactome information cells, which are not "accessible" conventional methods. Currently,...
Abstract Mitochondrial proteases are key components in mitochondrial stress responses that maintain proteostasis and integrity harsh environmental conditions, which leads to the acquisition of aggressive phenotypes, including chemoresistance metastasis. However, molecular mechanisms exact role cancer remain largely unexplored. Here, we identified functional crosstalk between LONP1 ClpP, two matrix cooperate attenuate proteotoxic protect functions for cell survival. ClpP genes closely...
Abstract Promiscuous labeling enzymes, such as APEX2 or TurboID, are commonly used in situ biotinylation studies of subcellular proteomes protein–protein interactions. Although the conventional approach enriching biotinylated proteins is widely implemented, in-depth identification specific sites remains challenging, and current approaches technically demanding with low yields. A novel method to systematically identify for LC-MS analysis followed by proximity showed excellent performance...
We have developed the first selective fluorescent chemosensor (PyDPA) for (p)ppGpp, a bacterial and plant alarmone. By using pyrene-excimer fluorescence, PyDPA shows very good selectivity (p)ppGpp from among other nucleotides in water. was used real-time detection of vitro ppGpp synthesis by ribosomal complexes.
Flavins, comprising flavin mononucleotide (FMN), adenine dinucleotide (FAD), and riboflavin (RF, vitamin B2), play important roles in numerous redox reactions such as those taking place the electron-transfer chains of mitochondria all eukaryotes plastids plants. A selective chemosensor for flavins would be useful not only investigation metabolic processes but also diagnosis diseases related to flavins; a sensor is presently unavailable. Herein, we report first bifunctional (PTZ-DPA) flavins....
Abstract We introduce UnaG as a green-to-dark photoswitching fluorescent protein capable of high-quality super-resolution imaging with photon numbers equivalent to the brightest photoswitchable red protein. only fluoresces upon binding fluorogenic metabolite, bilirubin, enabling UV-free reversible easily controllable kinetics and low background under Epi illumination. The on- off-switching rates are controlled by concentration ligand excitation light intensity, respectively, where dissolved...
Targeting proximity-labeling enzymes to specific cellular locations is a viable strategy for profiling subcellular proteomes. Here, we generated transgenic mice (MAX-Tg) expressing mitochondrial matrix-targeted ascorbate peroxidase. Comparative analysis of matrix proteomes from the muscle tissues showed differential enrichment proteins. We found that reticulon 4-interacting protein 1 (RTN4IP1), also known as optic atrophy-10, enriched in and an NADPH oxidoreductase. Interactome vitro...
Abstract Identifying proteins at organelle contact sites, such as mitochondria-associated endoplasmic reticulum membranes (MAM), is essential for understanding vital cellular processes, yet challenging due to their dynamic nature. Here we report “OrthoID”, a proteomic method utilizing engineered enzymes, TurboID and APEX2, the biotinylation (Bt) adamantylation (Ad) of close mitochondria (ER), respectively, in conjunction with high-affinity binding pairs, streptavidin-biotin (SA-Bt)...