รองศาสตราจารย์ ดร.ศรินทร์ ฉิมณรงค์

Education:

Introduction: Less than 3% of the human genome encodesproteins, and more than half of the transcripts in human appear to be non-coding (nc) RNAs. This fact redefined the paradigm of genetic flow (The Central Dogma), and shed light on the hidden roles of ncRNAs in regulation of cellular processes. There are likely to be many more unknown ncRNAs that are fulfilling a wide range of unexpected functions in eukaryotic biology.

Given that ncRNAs require formation of the ribonucleoprotein (RNP) complexes to be functional, our studies are focusing on the interaction interfaces between proteins and ncRNAs (RNPomics). In particular, we performed genome-wide searches for the RNP interfaces between dengue viral RNA and human factors, and discovered the RNA promoter motif in dengue genomic RNA for the first time. We are attempting to inhibit this interface for the development of anti-dengue therapy. Our researches are discovery-based, and employ multidisciplinary approaches from genetic screen, bioinformatics,in vitro analysis, cell-based assays, to X-ray crystallographic analysis of 3D structure of RNP molecules. We own several modern methodology such as the yeast three-hybrid system, random mutagenesis, RNA-binding assays, RNA cross-link immunoprecipitation (CLIP), and RNP crystallization. We are also trying to develop novel system to globally identify the target genes of miRNAs in eukaryotes. We aim to perform unique, outstanding, and high-impact researches in Thailand

Selected Publications

1. Hodge K, Tunghirun C, Kamkaew M, Limjindaporn T, Yenchitsomanus PT, Chimnaronk S. (2016) Identification of A Conserved RdRp-RNA Interface Required for Flaviviral Replication. J Biol Chem. 291(33), 17437-49.
2. Poyomtip T., Hodge K., Matangkasombut P., Sakuntabhai A., Pisitkun T., Jirawatnotai S., Chimnaronk S. (2016) Development of viable TAP-tagged dengue virus for investigation of host-virus interaction in viral replication. J Gen Virol. 97(3), 646-58.
3. Kamkaew M., Chimnaronk S. (2015) Characterization of soluble RNA-dependent RNA polymerase from dengue virus serotype 2: The polyhistidine tag compromises the polymerase activity. Protein Expr Purif. 112, 43-9.
4. Choksupmanee, O., Hodge, K., Katzenmeier, G., Chimnaronk, S. (2012) Structural platform for the autolytic activity of an intact NS2B-NS3 protease complex from dengue virus. Biochemistry. 51, 2840-51.

Full Publications

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1. Chen M, Narai S, Omura N, Shigi N, Chimnaronk S, Tanaka Y, Yao M. (2016) Crystallographic study of the 2-thioribothymidine-synthetic complex TtuA-TtuB from Thermus thermophilus. Acta Crystallogr F Struct Biol Commun. 72(Pt 10), 777-781.
2. Hodge K, Tunghirun C, Kamkaew M, Limjindaporn T, Yenchitsomanus PT, Chimnaronk S. (2016) Identification of A Conserved RdRp-RNA Interface Required for Flaviviral Replication. J Biol Chem. 291(33), 17437-49.
3. Noppakunmongkolchai W., Poyomtip T., Jittawuttipoka T., Luplertlop N., Sakuntabhai A., Chimnaronk S., Jirawatnotai S., Tohtong R. (2016) Inhibition of protein kinase C promotes dengue virus replication. Virol J. 13(1), 35.
4. Poyomtip T., Hodge K., Matangkasombut P., Sakuntabhai A., Pisitkun T., Jirawatnotai S., Chimnaronk S. (2016) Development of viable TAP-tagged dengue virus for investigation of host-virus interaction in viral replication. J Gen Virol. 97(3), 646-58. 
5. Chimnaronk S., Sitthiroongruang J., Srisucharitpanit K., Srisaisup M., Ketterman A.J., Boonserm P. (2015) The crystal structure of JNK from Drosophila melanogaster reveals an evolutionarily conserved topology with that of mammalian JNK proteins. BMC Struct Biol. 15(1), 17. 
6. Kamkaew M., Chimnaronk S. (2015) Characterization of soluble RNA-dependent RNA polymerase from dengue virus serotype 2: The polyhistidine tag compromises the polymerase activity. Protein Expr Purif. 112, 43-9. 
7. Srisucharitpanit K., Yao M., Promdonkoy B., Chimnaronk S., Tanaka I.*, Boonserm P. (2014) Crystal structure of BinB: A receptor binding component of the binary toxin from Lysinibacillus sphaericus. Proteins. 82(10), 2703-12.
8. Srisucharitpanit K., Yao M., Chimnaronk S., Promdonkoy B., Tanaka I., Boonserm P. (2013) Crystallization and preliminary X-ray crystallographic analysis of the functional form of BinB binary toxin from Bacillus sphaericus. Acta Crystallogr Sect F Struct Biol Cryst Commun. 69, 170-3.
9. Choksupmanee, O., Hodge, K., Katzenmeier, G., Chimnaronk, S. (2012) Structural platform for the autolytic activity of an intact NS2B-NS3 protease complex from dengue virus. Biochemistry. 51, 2840-51.
10. Jungtrakoon, P., Plengvidhya, N., Tangjittipokin, W., Chimnaronk, S., Salaemae, W., Chongjaroen, N., Chanprasert, K., Sujjitjoon, J., Srisawat, C., and Yenchitsomanus, PT. (2011) Novel adiponectin variants identified in type 2 diabetic patients reveal multimerization and secretion defects. PLoS One. 6(10), e26792.
11. Tanaka Y., Yamagata S., Kitago Y., Yamada Y., Chimnaronk S., Yao M., and Tanaka I. (2009) Deduced RNA binding mechanism of ThiI based on structural and binding analyses of a minimal RNA ligand. RNA. 15, 1498-1506. 
12. Chimnaronk, S., Forouhar F., Sakai J., Yao M., Tron C.M., Atta M., Fontecave M., Hunt J.F., and Tanaka I. (2009) Snapshots of Dynamics in Synthesizing N6-isopentenyladenosine at tRNA Anticodon. Biochemistry. 48, 5057-5065.
13. Chimnaronk, S., Suzuki, T., Manita, T., Ikeuchi, Y., Yao, M., Suzuki, T., and Tanaka, I. (2008) RNA helicase module in an acetyltransferase that modifies a specific tRNA anticodon. EMBO J. 28, 1362-1373.
14. Nakamura, A., Yao, M., Chimnaronk, S., Sakai, N., and Tanaka, I. (2006) Ammonia channel couples glutaminase with transamidase reaction in GatCAB. Science 312, 1954-1958.
15. Chimnaronk, S., Jeppesen, M.G., Suzuki, T., Nyborg, J., and Watanabe, K. (2005) Dual-mode recognition of noncanonical tRNAsSer by seryl-tRNA synthetase in mammalian mitochondria. EMBO J. 24, 3369-3379. 
16. Chimnaronk, S., Jeppesen, M.G., Shimada, N., Suzuki, T., Nyborg, J., and Watanabe, K. (2004) Crystallization and preliminary X-ray diffraction study of mammalian mitochondrial seryl-tRNA synthetase. Acta Crystallogr. Sec. D. 60, 1319-1322.