2023
Cho, C., Ganser,C., Uchihashi, T., Kato, K., Song, J.J., Structure of Human ATAD2 AAA+ Histone Chaperone Reveals Mechanism of Regulation and Inter-subunit Communication. Communications Biology (2023)
Yoo, E., Song, J.J., Caf1 regulates the histone methyltransferase activity of Ash1l by sensing unmodified histone H3. Epigenetics & Chromatin (2023).
Shin, S., Han, S., Kim, J., Shin, Y., Song, J.J., Hohng, S., Fast, sensitive and specific multiplexed single-molecule detection of circulating tumor DNA. Biosensors and Bioelectronics (2023)
Kim, H.S., Bae, J.H, Kim, G., Song, J.J., Kim, H.S., Construction and Functionalization of a Clathrin Assembly for a Targeted Protein Delivery. Small (2023).
Yu, T.G., Cha, J.S., Kim, G., Sohn, Y.K., Yoo, Y., Kim, U., Song, J.J., Cho, H.S., Kim. H.S., Oligomeric states of ASC specks regulate inflammatory responses by inflammasome in the extracellular space. Cell Death Discov. (2023).
Kim, Y., Park, H., Kim, Y., Kim, S.H., Lee, J.H., Yang, H., Kim, S.J., Li, C.M., Lee, H., Na, D.H., Moon, S., Shin, Y., Kam, T.I., Lee, H.W., Kim, S., Song, J.J., Jung, Y.K., Pathogenic Role of RAGE in Tau Transmission and Memory Deficits. Biol. Psychiatry (2023).
Lee, Y., Kim, H., Barker, D., Vijayvargia, R., Atwal, R.S., Specht, H., Keshishian, H., Carr, S.A., Lee, R., Kwak, Seung, Hyun, K.-G., Loupe, J., MacDonald, M.E., *Song, J.J., *Seong, I.S., Huntingtin turnover: modulation of huntingtin degradation by cAMP-dependent protein kinase A (PKA) phosphorylation of C-HEAT domain Ser2550. Human Mol. Gen. (2023) (*Co-corresponding authors)
2022
Kim, H., Lenoir, S., Helfricht, A., Jung, T., Karneva, Z.K., Lee, Y., Beumer, W., van der Horst, G.B., Anthonijsz., H., Buil, L., van der Ham, F., Platenburg, G.J., Purhonen, P., Hebert, H., Humbert, S., Saudou, F., Klein, P., Song, J.J., A pathogenic proteolysis-resistant huntingtin isoform induced by an antisense oligonucleotide maintains huntingtin function in mice. JCI Insight (2022).
Heo, Y., Yoon, E., Jeon, Y.-E., Yun, J.-H., Ishimoto, N., Woo, H., Park, S.-Y., *Song, J.J., *Lee, W., Cryo-EM structure of the human somatostatin receptor 2 complex with its agonist somatostatin delineates the ligand binding specificity. eLife (2022) (*Co-corresponding authors)
Kim, H.S., Bae, J.H., Kim, G., Song, J.J., Kim, H.S., Construction and Functionalization of a Clathrin Assembly for a Targeted Protein Delivery. Small (2022).
2021
Kim, H., Hyun, K.-g., Lloret, A., Seong, I.S., Song, J.J., Purification of full-length recombinant human huntingtin proteins with allelic series of polyglutamine lengths. STAR Protocols (2021).
Lee, E., Kang, C., Purhonen, P., Hebert, H., Bouazoune, K., Hohng, S., Song, J.J., A novel N-terminal region to chromodomain in CHD7 is required for the efficient remodeling activity. Journal of Molecular Biology (2021).
Kang, S., Kim, Y., Shin, Y., *Song, J.J., *Jon, S., Antigen-Presenting, Self-Assembled Protein Nanobarrels as an Adjuvant-Free Vaccine Platform against Influenza Virus. ACS Nano (2021). (*Co-corresponding authors)
Cho, S., Kim, G., *Song, J.J., *Cho, C., Cryo-EM Structure of Vibrio cholerae aldehyde-alcohol dehydrogenase spirosomes. Biochem Biophys Res Commun. (2021) (*Co-corresponding authors)
Caron, N., Banos, R., Yanick, C., Aly, A., Byrne, L., Smith, E., Xie, Y., Smith, S., Potluri, N., Black, H.F., Casal, L., Ko, S., Cheung, D., Kim, H., Seong, I.S., Wild, E., Song, J.J., Hayden, M., Southwell, A., Mutant huntingtin is cleared from the brain via active mechanisms in Huntington disease. Journal of Neuroscience (2021)
Bae, J.-H., Kim, H.-S., Kim, G., Song, J.J., Kim, H.-S., Dendrimer-Like Supramolecular Assembly of Proteins with a Tunable Size and Valency Through Stepwise Iterative Growth. Advanced Science (2021)
2020
Kir, J., Lee, J.Y., Lee, Y., Kang, C., Shin, S., Lee, E., *Song, J.J., *Hohong, S., Yeast Chd1p unwraps the exit side DNA upon ATP binding to facilitate the nucleosome translocation occurring upon ATP hydrolysis. Biochemistry (2020) (*Co-corresponding authors)
Shin, S., Jung, Y., Uhm, H., Song, M., Son, S., Goo, J., Jeong, C., Song, J.J., Kim, V.N, Hohong, S., Quantification of purified endogenous miRNAs with high sensitivity and specificity. Nature Communications (2020)
Lee, S.H., Hyeon, D.Y., Yoon, S.H., Jeong, J.H., Han, S.H., Jang, J.W., Nguyen, M.P., Chi, X.Z., An, S., Hyun, K.G., Jung, H.J., Song, J.J., Bae, S.C., Kim, W.H., Hwang, D.H., Lee, Y.M., RUNX methylation drives hypoxia-induced cell proliferation and antiapoptosis in early tumorigenesis., Cell Death and Differentiation (2020)
Kim, G., Jang, S., Lee, E., Song, J.J., EMPAS: Electron Microcopy Screening for Endogenous Protein Architecture. Molecules & Cells (2020)
Jung, T.*, Shin, B.*, Tamo, G.*, Kim, H.*, Vijayvargia, R., Leitner, A., Marcaida, M.J., Astrorga-Wells, J., Jung, R., Aebersold, R., Dal Peraro, M., Hebert, H., Seong I.S., Song, J.J., The polyglutamine expansion at the N-terminal of huntingtin modulates the dynamic configuration and phosphorylation of the C-terminal HEAT domain. Structure (2020) (*equally contributed)
Kim, G.J, Yang, J.S., Jang, J.W., Choi, J.-S., Roe, A., Byron, O.,Seok, C., Song, J.J., Aldehyde-alcohol dehydrogenase undergoes structural transition to form extended spirosome for substrate channeling. Communications Biology (2020)
Lee, B., Park, S.J., Lee S., Park, S.E., Lee, E., Song, J.J., Byun Y., Kim, S., Identification of the antidepressant vilazodone asan inhibitor of inositol polyphosphate multikinase by structure-based drug repositioning. Molecules & Cells (2020)
Song, J., Lee, H.Y., Yang, H.W., Song J.J., Lagarias, J.C., Park, Y.-I., Spectral and photochenimcal diversity of tandem cysteine cynobacterial phytochronmes. Journal of Biological Chemistry (2020).
2019
Cho, C., Jang, J., Kang, Y., Watanabe, H., Uchihashi, T., Kim, S.J., Kato, K.,Lee, J.Y., Song, J.J., Structural basis of nucleosome assembly by the Abo1 AAA+ ATPase histone chaperone. Nature Communications (2019)
Kim G.J., Azmi, L.B., Jang, S., Jung, T., Hebert, H., Roe, A., Byron, O., Song, J.J.,Aldehyde-alcohol dehydrogenase forms a high-order spirosome architecture critical for its activity. Nature Communications (2019)
Jang, S. and Song, J.J. ,The big picture of chromatin biology by Cryo-EM. Current Opinion in Structural Biology (2019)
Jang, S., Kang, C., Yang, H-.S., Jung, T., Hebert, H., Chung, K.Y., Kim, S.J., Hohng, S., Song, J.J., Structrual basis of recognition and destabilization oof histone H2B ubiquitinated nucleosome by DOT1L histone H3 Lys79 methyltransferase. Genes & Development (2019)
Lee, H., Song, J.J., The crystal structure of Capicua HMG-box domain complexed with the ETV5-DNA and its implications for Capicua-mediated cancers. FEBS Journal (2019)
Lee, Y.J., Yoon, E.J., Cho, S.H., Schmähling, S., Müller, J., Song, J.J., Structural Basis of MRG15 Mediated-activation of ASH1L Histone Methyltransferase by Reseasing an Auto-inhibitory Loop. Structure (2019)
2018
Schmaehling, S., Meiler, A., Lee, Y., Mohammed, A., Finkl, K., Tauscher, K., Israel, L., Borath, M., Philippou-Massier, J., Blum, H., Habermann, B., Imhof, A., Song, J.J., Mueller, J., Regulation and function of H3K36 di-methylation by the trithorax-group protein complex AMC. Development (2018)
Yoon, J.M., Kim, S.J., An, S., Leitner, A., Jung, T.Y., Aebersold, R., Hebert, H., Cho, U.-S., Song, J.J., Integrative structural investigation on the architecture of human Importin4_histone H3/H4_Asf1a complex and its histone H3 tail binding. Journal of Molecular Biology (2018).
Lee, Y., Lim B., Lee, S.W., Lee. W.R., Kim, Y.I., Kim, M., Ju, H., Kim, M.Y., Kang, S.J., Song, J.J.*, Lee, E.*, Kang, C.*, ANKRD9 is associated with tumor suppression as a substrate receptor subunit of ubiquitin ligase. BBA-Molecular Basis of Disease (2018)*co-corresponding authors
Shin, B., Jung, R., Oh, H., Owens, G., Lee, H., Kwak, S., Lee, R., Cotman, S., Lee, J.M., MacDonald, M., Song, J.J.,Vijayvargia, R., Seong I.S., Novel DNA aptamers that bind to mutant huntingtin and modify its activity. Molecular Therapy-Nucleic Acids (2018)
Shin, M., Lee, H.A., Lee, M., Shin, Y., Song, J.J.,Kang, S.W., Nam, D.H., Jeon, E.J., Cho, M., Do, M.J., Park, S.H., Lee, M.S., Jang, J.H., Cho, S.W., Kim, K.S., Lee, H., TANNylation: Heart-targeting Protein Modification Strategy., Nature Biomedical Engineering(2018)
2017
An, S*, Yoon, J.M.*, Kim, H., Song, J.J., Cho, U.-S., Structure-based nuclear importin mechanism of histone H3 and H4 mediated by Kap123. eLife (2017) (*Co-first author)
Hyun, K., Noh, Y-.S., Song, J.J., Arabidopsis FRIGIDA stimulates EFS histone H3 Lys 36 methyltransferase activity. Plant Cell Reports (2017).
Mushtag, A.U., Lee, Y., Hwang, E., Bang, J.K., Hong, E., Byun, Y., Song, J.J., Jeon, Y.H., Biophysical characterization of the basic cluster in the transcription repression domain of human MeCP2 with AT-rich DNA. Biochemical and Biophysical Research Communication (2017)
Park, K.H., An, Y., Jung, Y.Y., Baek, I.Y., Noh, H., Ahn, W.C., Hebert, H., Song, J.J., Kim, J.H., Oh, B.H., Woo, E.J., RNA activation-independent DNA targeting of the Type III CRISPR-Cas system by a Csm complex. EMBO Rep. (2017)
Cho, S.M., Jeoung, S.C., Song, J.-Y., Song, J.J., Park, YI., Hydrophobic Residues near the Bilin Chromophore-Binding Pocket Modulate Spectral Tuning of Insert-Cys Subfamily Cyanobacteriochromes., Scientific Reports (2017)
2016
Kim D., Setiaputra, D., Jung, T.Y., Chung, J., Leitner, A., Yoon, J., Febersold, R., Hebert, H., Yip, C.K., Song, J.J., Molecular Architecture of Yeast Chromatin Assembly Factor 1. Scientific Reports (2016)
Hyun, K., Oh, J.E., Park, J.H., Noh, Y.-S., Song, J.J. Structural Analysis of FRIGIDA Flowering-time Regulator. Molecular Plant (2016)
Vijayvargia, R., Epand, R., Leitner, A., Jung, T.Y., Shin, B., Jung, R., Lloret, A., Atwal, R.S., Lee, S., Lee, J.M., Aebersold, R., Hebert, H., *Song, J.J., *Seong, I.S., Huntingtin’s spherical solenoid structure enables polyglutamine tract-dependent modulation of its structure and function. eLife (2016) (*co-corresponding authors)
Hyun, K., Lee, Y., Yoon, J., Yi H., Song, J.J., Crystal structure of Arabidopsis thaliana SNC1 TIR domain., Biochemical and Biophysical Research Communication (2016)
Park S, Shin Y.M., Seo, J., Song, J.J., Yang, H.S., Highly sensitive and simply operated protease sensor toward point-of-care testing. Analyst (2016) (*co-corresponding authors)
Hyun, S.H., Park, D.K., Kang, A., Kim, S., Kim, D., Shin, Y.M., Song, J.J., Yun, W.S., Label-free electrochemical detection of botulinum neurotoxin type E based on its enzymatic activity using interdigitated electrodes. Applied Physics Letters (2016)
2015
Lee, Y., Song, J.J., Reconstitution and Crystallization of Sir 3/4 in a Complex with Nucleosome. Bulletin of the Korean Chemical Society (2015).
Yoon, J.H., Jo, M.H., White, E.J.F., De, S., Hafner, M., Zucconi, B.E., Abdelmohsen, K., Martindale, J.L., Yang, X., Wood, W.H., Shin, Y.M., Song, J.J., Tuschl, T., Becker, K.G., Wilson, G.M., Hohng, S., Gorospe, M., AUF1 promotes let-7b loading on Argonaute 2. Genes & Development (2015)
Jo, M.H., Shin, S., Jung, S.-R., Kim, E., *Song, J.J., *Hohong, S. Human Argonaute2 has diverse reaction pathways on target RNAs. Molecular Cell (2015) (*co-corresponding authors)
Cho, S.M., Jeoung, S.C., Kupriyanova, E.V., Pronina N.A., Lee, B.W., Jo., S.W., Park, B.S., Choi, S., Song, J.J., Park, Y.I., Genomic survey and biochemical analysis of recombinant candidate cyanobacteriochromes reveals enrichment for near UV/Violet sensors in the halotolerant and alkaliphilic cyanobacterium Microcoleus IPPAS B353. J. Biol. Chem. (2015)
2014
Kang, C., Song, J.J., Lee, J., Kim, M.Y., Epigenetics: An emerging player in gastric cancer. World J. Gastroenterol. (2014)
Kim, E., Lee Y., Choi, S., Song, J.J., Structural basis of the phosphorylation dependent complex formation of neurodegenerative disease protein Ataxain-1 and RBM17. Biochemical and Biophysical Research Communication (2014)
2013
Jung, S.-R., Kim, E., Hwang, W., Shin, S., Song, J.J.*, Hohng, S.*, Dynamic anchoring of the 3'-end of the guide strand controls the target dissociation of Argonaute-guide complex. J. Am. Chem. Soc. (2013) ( *co-corresponding authors)
Kim, E., Lu, S.-C., Zoghbi, H.Y., Song, J.J., Structural basis of protein complex formation and reconfiguration by polyglutamine disease protein ATAXN-1 and Capicua. Genes & Development (2013)
Kim, D.G., Park, J., Kim, S.J., Soh, Y.-M., Kim, H.M., Oh, B.-H., Song, J.J., Brucella Immunogenic BP26
forms a Channel-like Structure. J. Mol. Biol. (2013) Cover Article
2012
Park, J. Lammers, F., Herr, W., and Song, J.J., HCF-1 self-association via an interdigitated Fn3 structure facilitates transcriptional regulatory complex formation. Proc. Natl. Acad. Sci. U.S.A. (2012)
Cho, J.-N., Ryu, J.-Y., Jeong, Y.-M., Park, J., Song, J.J., Amasino, R.M., Noh, B., and Noh, Y.-S. Control of Seed Germination by Light-Induced Histone Arginine Demethylation Activity. Dev. Cell 22, 1-13 (2012)
Lee, J.H, Jung, S.C., Bui, L.M., Kang, K.H., Song, J.J., Kim, S.C., Improved production of L-threonine using a DNA scaffold system in Escherichia coli. Appl. Environ. Microbiol. (2012)
2011
Kim, E. and Song, J.J. Diverse ways to be specific:a novel Zn-binding domain confers substrate specificity to UTX/KDM6A histone H3 Lys27 demethylase. Genes & Dev. 25,2223-2226 (2011)
An, S., and Song, J.J., The coded functions of noncoding RNAs for gene regulation. Mol. Cells 31 (2011)
An, S., Yeo, K.J., Jeon, Y.H., and Song, J.J., Crystal structure of human histone methyltransferase
Ash1L catalytic domain and its implications on the regulatory mechanism., J. Bio. Chem. (2011) Cover Article
2010
Zhao, J., Ohsumi, T.K., Kung, J.T., Grau, D.J., Sarma, K., Song, J.J., Kingston, R.E., Borowsky, M., Lee, L.T., Genome-wide identification of Polycomb-Associated RNAs by RIP-seq., Mol. Cell 40, 939-953 (2010)
Seong, I.S., Woda, J.M., Song, J.J., Lloret, A., Abeyranthne, P.D., Woo, C.J., Gregory, G., Lee, J.M., Wheeler, V.C., Walz, T., Kingston, R.E., Gusella, J.F., Conlon, R.A., MacDonald, M.E., Huntingtin facilitates polycomb repressive complex 2., Human Mol. Gen. 19, 573-583 (2010)
2008-
Zhao, J., Sun, B.K., Erwin, J.A., Song, J.J., Lee, J.T., Polycomb proteins targeted by a short repeat RNA to the mouse X-chromosome. Science 322, 750-756(2008)
Song, J.J., Kingston, R.,E. WDR5 interacts with mixed lineage leukemia (MLL) protein via the histone H3-binding pocket., J. Biol. Chem. 283, 34258064 (2008)
Song, J.J., Garlick, J.D., Kingston, R.E., Structural basis of Histone recognition by p55, Genes & Dev., 22, 1313-1318 (2008). Cover paper
Song, J.J., Joshua-Tor, L., Argonaute and RNA – getting into the groove. Curr. Opinion Struct. Biol. 16,5-11 (2006).
Rivas, F.V.*, Tolia, N.H.*, Song, J.J.*, Aragon, J.P., Liu, J., Hannon, G.J., Joshua-Tor, L., Purified Argonaute2 and siRNA form recombinant human RISC. Nat. Struct. Mol. Biol. 21, 240-249 (2005). (*contributed equally)
Liu, J., Carmell, M. A., Rivas, F. V., Marsden, C. G., Thomson, J. M., Song, J. J., Hammond, S. M., Joshua-Tor, L., Hannon, G.J., Argonaute2 is the catalytic engine of mammalian RNAi, Science 305, 1437-1441(2004).
Song, J. J., Smith, S. K., Hannon, G. J., Joshua-Tor, L., Crystal structure of Argonaute and
its implications for RISC Slicer activity. Science 305, 1434-1437(2004). Cover Research article
Song, J. J., Liu J., Tolia, N.H., Schneiderman, J., Smith, S.K., Martienssen, R.A., Hannon, G.J., Joshua-Tor, L., The crystal structure of the Argonaute2 PAZ domain reveals an RNA binding motif in RNAi effector complexes, Nat. Struct. Biol. 10, 1026-1032(2003).
Song, J. J., Kim, M. K., Hur, E., Park, H., Eom, S. H., Crystallization and preliminary X-ray crystallographic analysis of bHLH domain of Aryl Hydrocarbon Receptor Nucleus Translocator, Prot. Pep. Lett. 8, 419-422(2001).
Wang, J., Song, J. J., Seong, I. S., Franklin, M. C., Kamtekar, S., Eom, S. H., Chung, C. H., Nucleotide-dependent conformational changes in a protease-associated ATPase HslU, Structure 9, 1107-1116(2001).
Wang, J., Song, J. J., Franklin, M. C., Kamtekar, S., Im, Y. J., Rho, S. H., Seong, I. S., Lee, C. S., Chung, C. H., Eom, S. H., Crystal structures of the HslVU peptidase-ATPase complex reveal an ATP-dependent proteolysis mechanism, Structure 9, 177-84(2001).
Song, J. J., Lee, C. S., Kim, Y. S., Kim, J. J., Im, Y. J., Kim, H. H., Yoo, S. J., Seong, I. S., Chung, C. H., and Eom, S. H., Crystallization and preliminary X-ray crystallographic studies of HslU mutant in Escherichia coli, Bull. Korean Chem. Soc. 21, 747-748(2000).