|Degree||Ph.D. Biophysics. 1996-2001. The Ohio State University, Columbus, OH|
Structure-function studies on macromolecules by x-ray crystallography
Determining the three-dimensional structure of proteins at high-resolution by x-ray crystallography is a powerful approach to investigate and understand the biochemical function of proteins. In our lab, we are interested in structure-function studies on a few proteins with significant biomedical potential by using x-ray crystallography in combination with various biophysical and biochemical approaches: 1) Human leucine rich repeat kinase 2 (LRRK2), mutations in which are the most common cause of Parkinson’s disease. Our goal is to unravel the mechanisms of the pathogenic mutations and the unique intra-molecular signaling in LRRK2. 2) IL-18, IL-18BP and receptors that are involved in inflammatory and autoimmune diseases. 3) Other important proteins such as poxvirus host range proteins and prophenoloxidase involved in insect innate immune response.
Dr. deng's laboratory
Bing Zhang, Caini Liu, Wen Qian, Yue Han, Xiaoxia Li, and Junpeng Deng. Crystal Structure of IL-17 Receptor B SEFIR Domain.
Holyoak T, Zhang B, Deng J, Tang Q, Prasannan CB, Fenton AW. Energetic Coupling between an Oxidizable Cysteine and the Phosphorylatable N-Terminus of Human Liver Pyruvate Kinase.
Krumm B, Meng X, Xiang Y and Deng J. A Unique Bivalent Binding and Inhibition Mechanism by the Yatapoxvirus Interleukin 18 Binding Protein. Plos Pathogens 2012. e1002876. Aug 23.
Peng X, Wang Y, Kolli, S, Deng J*, Li L, Wang Z, Raj JU, Gou D*. Physical and functional interactions between ID1 and p65 for activation of NFkB. Am J Physiol Cell Physiol. 2012. May 16 [Epub ahead of print] (* correspondence author)
Wu X, Meng X, Yan B, Rose L, Deng J, Xiang Y. Vaccinia virus virion membrane biogenesis protein A11 associates with viral membranes in a manner that requires the expression of another membrane biogenesis protein A6. J Virol 2012. 86:11276-86
Liu C, Swaidani S, Qian W, Kang Z, Sun P, Han Y, Wang C, Gulen MF, Yin W, Zhang C, Fox PL, Aronica M, Hamilton TA, Misra S, Deng J, Li X. 2011. A CC' loop decoy peptide blocks the interaction between Act1 and IL-17RA to attenuate IL-17- and IL-25-induced inflammation. Sci Signal. 4(197):ra72
Xu C, Meng X, Yan B, Crotty S, Deng J, Xiang Y. 2011. An epitope conserved in orthopoxvirus A13 envelope protein is the target of neutralizing and protective antibodies. Virology. 418:67-73
Wu M, Park YJ, Pardon E, Turley S, Hayhurst A, Deng J, Steyaert J, Hol WG. 2011. Structures of a key interaction protein from the Trypanosoma brucei editosome in complex with single domain antibodies. J Struct Biol. 174:124-136.
Li YC, Meng X, Xiang Y and Deng J. Structure function studies of vaccinia virus host-range protein K1 reveal a novel functional surface for ankyrin-repeat proteins. 2010. Journal of virology, 84:3331-3338.
Schnaufer A, Wu M, Park YJ, Nakai T, Deng J, Proff R, Hol WG and Stuart KD. A protein-protein interaction map of Trypanosome ~20S editosomes. J Biol Chem. 2009 Dec 14. [Epub ahead of print] PMID: 20018860
Li YC, Wang Y, Jiang HB and Deng JP. Crystal structure of prophenoloxidase from Manduca sexta provides insights into type 3 copper enzymes. 2009. Proc Natl Acad Sci U S A. published online before print September 28, 2009, doi:10.1073/pnas.0906095106
Li YC, Dunn L, Greggio E, Krumm B, Jackson GS, Cookson MR, Lewis PA and Deng JP. The R1441C mutation alters the folding properties of the ROC domain of LRRK2. 2009. Biochimica et Biophysica Acta - Molecular Basis of Disease. Sep 22. [Epub ahead of print]doi:10.1016/j.bbadis.2009.09.010
Greggio E, Taymans JM, Zhen EY, Ryder J, Vancraenenbroeck R, Beilina A, Sun P, Deng J, Jaffe H, Baekelandt V, Merchant K and Cookson MR. The Parkinson's disease kinase LRRK2 autophosphorylates its GTPase domain at multiple sites. 2009. Biochem Biophys Res Commun. 2009 Sep 3. [Epub ahead of print]
Krumm B, Meng X, Li Y, Xiang Y and Deng J. Structural Basis for Antagonism of Human Interleukin-18 by Poxvirus Interleukin-18 Binding Protein. 2008. Proc Natl Acad Sci U S A, 105: 20711-20715.
Deng J*, Lewis PA, Greggio E, Sluch E, Beilina A, Cookson MR. Structure of the ROC domain from the Parkinson's disease-associated leucine-rich repeat kinase 2 reveals a dimeric GTPase. 2008. Proc Natl Acad Sci U S A, 105: 1499-1504. (*correspondence)
Tarun SZ Jr, Schnaufer A, Ernst NL, Proff R, Deng J, Hol W, Stuart K. KREPA6 is an RNA-binding protein essential for editosome integrity and survival of Trypanosoma brucei. 2008. RNA, 14:347-358
Deng J, Ernst NL, Turley S, Stuart KD, Hol WG. Structural basis for UTP specificity of RNA editing TUTase 2 (RET2) from Trypanosoma brucei. 2005. EMBO J. 24:4007-4017.
Deng J, Schnaufer A, Salavati R, Stuart KD, Hol WG. High resolution crystal structure of a key editosome enzyme from Trypanosoma brucei: RNA editing ligase 1. 2004. JOURNAL OF MOLECULAR BIOLOGY, 343:601-613
Deng JP, Davies DR, Wisedchaisri G, Wu MT, Hol WGJ and Mehlin C. An improved protocol for rapid freezing of protein samples for long-term storage. 2004. ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 60: 203-204.
Deng JP, Pan BC and Sundaralingam M. Structure of d(ITITACAC) complexed with distamycin at 1.6 angstrom resolution. 2003. ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 59: 2342-2344.
Baocheng Pan, Yong Xiong, Ke Shi, Junpeng Deng & Muttaiya Sundaralingam. Crystal Structure of an RNA Purine-Rich Tetraplex Containing Adenine-Tetrads: Implications for Specific Binding in RNA Tetraplexes. 2003. Structure, 11: 815-823.
Deng, J., Xiong Y., Pan B. & Sundaralingam, M. Crystal structure of an RNA fragment containing the symmetry internal loop in SRP domain IV of E. coli. 2003. ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 59: 1004-1011.
Deng, J., Xiong Y., & Sundaralingam, M. X-ray analysis of an RNA tetraplex: r(uggggu)4 with divalent Sr2+ ions at subatomic resolution (0.61Å). 2001. Proc Natl Acad Sci U S A, 98:13665-70.
Deng J., Xiong Y., Sudarsanakumar C., Shi K., Sundaralingam M. Crystal structures of two forms of a 14-mer RNA/DNA chimer duplex with double UU bulges: a novel intramolecular U*(A U) base triple. 2001. RNA. 7:1425-31.
Xiong Y., Deng J., Sudarsanakumar C., Sundaralingam M. Crystal Structure of an RNA Duplex r(gugucgcac)(2) with Uridine Bulges. 2001. J Mol Biol. 313:573-82.
Deng JP, Sundaralingam M.,Synthesis and crystal structure of an octamer RNA r(guguuuac)/r(guaggcac) with G•G/U•U tandem wobble base Pairs: Comparison with other tandem G•U pairs. 2000. Nucleic Acids Res, 28:4376-4381.
He XL, Deng JP, Wang M. Wang DC, Structure of a new neurotoxin from the scorpion Buthus martensii Karsch at 1.76 angstrom. 2000. ACTA CRYSTALLOGR D 56: 25-33.