© by Song Laboratory

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).

1.

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).

2.

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).

3.

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).

4.

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).

5.

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).

6.

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

7.

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)

8.

Park, E., Rho, Y.M., Koh, O.J., Ahn, S.W., Seong, I.S., Song, J.J., Bang, O., Seol, J.H., Wang, J., Eom, S.H., Chung, C.H., Role of the GYVG pore motif of HslU ATPase in protein unfolding and translocation for degradation by HslV peptidase. J. Biol. Chem. 280, 22892-22898 (2005).

9.

Song, J.J., Joshua-Tor, L., Argonaute and RNA – getting into the groove. Curr. Opinion Struct. Biol. 16,5-11 (2006).

10.

Song, J.J., Garlick, J.D., Kingston, R.E., Structural basis of Histone recognition by p55, Genes & Dev., 22, 1313-1318 (2008). Cover paper

11.

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)

12.

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)

13.

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)

14.

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

15.

An, S., and Song, J.J., The coded functions of noncoding RNAs for gene regulation. Mol. Cells 31 (2011)

16.

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)

17.

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)

18.

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)

19.

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)

20.

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

21.

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 & Dev. (2013)

22.

Hept, E., Song, J.J., Lee, D., Kim, Y., A viral histone H4 joins to eukaryotic nucleosomes and alters host gene expression. J. Virology (2013)

23.

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)

24.

Kang, C., Song, J.J., Lee, J., Kim, M.Y., Epigenetics: An emerging player in gastric cancer. World J. Gastroenterol. (2014)

25.

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)

26.

Hept, E., Song, J.J., Lee, D., Kim, Y., A viral histone H4 joins to eukaryotic nucleosomes and alters host gene expression. J. Virology (2013)

27.

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)

28.

Kang, C., Song, J.J., Lee, J., Kim, M.Y., Epigenetics: An emerging player in gastric cancer. World J. Gastroenterol. (2014)

29.

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)

30.

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)

31.

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)

32.

Lee, Y., Song, J.J., Reconstitution and Crystallization of Sir 3/4 in a Complex with Nucleosome. Bulletin of the Korean Chemical Society (2015).

33.

Hyun, K., Oh, J.E., Park, J.H., Noh, Y.-S., Song, J.J. Structural Analysis of FRIGIDA Flowering-time Regulator. Molecular Plant (2016)

35.

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)

36.

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)

37.

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)

38.

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)

39.

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)

40.

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)

41.

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)

42.

Hyun, K., Noh, Y-.S., Song, J.J., Arabidopsis FRIGIDA stimulates EFS histone H3 Lys 36 methyltransferase activity. Plant Cell Reports (2017).

43.

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)

44.

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)

45.

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). 

46.

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)

47.

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)

48.

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)

49.

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)

50.

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)

51.

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 recogniztion and destabilization oof histone H2B ubiquitinated nucleosome by DOT1L histone H3 Lys79 methyltransferase. Genes & Development (2019)

52.

Jang S. and Song, J.J., The big picture of chromatin biology by Cryo-EM. Current Opinion in Structural Biology (2019)

52.

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)

53.