MACROMOLECULAR STRUCTURE

& FUNCTION LAB

​Email us:

dbsjayar@nus.edu.sg

​Find us:

Block S3, Level 3, Department of Biological Sciences, National University of Singapore,

14 Science Drive 4, Singapore 117543

Web constructed by YC & SD

Last modified on

11 April, 2023

SELECTED PUBLICATIONS (2007-2023)

  • Jianwei L, Jobichen C, Machida S, Meng S, Read RJ, Hongying C, Jian S, Yuan YA, Sivaraman J. Structures of apo Cas12a and its complex with crRNA and DNA reveal the dynamics of ternary complex formation and target DNA cleavage. PLoS Biol. 2023 Mar 14;21(3):e3002023.
  • Shankar S, Ramachandran S, Tulsian N, Radhakrishnan S, Jobichen C, Sivaraman J. A novel allosteric site employs a conserved inhibition mechanism in human kidney-type glutaminase. FEBS J. 2022 Oct 19. doi: 10.1111/febs.16658.
  • Gavor E, Choong YK, Liu Y, Pompon J, Ooi EE, Mok YK, Liu H, Kini RM, Sivaraman J. Identification of Aedes aegypti salivary gland proteins interacting with human immune receptor proteins. PLoS Negl Trop Dis. 2022 Sep 7;16(9):e0010743.
  • Bagga T, Tulsian NK, Mok YK, Kini RM, Sivaraman J. Mapping of molecular interactions between human E3 ligase TRIM69 and Dengue virus NS3 protease using hydrogen-deuterium exchange mass spectrometry. Cell Mol Life Sci. 2022 Apr 10;79(5):233.
  • Gavor E, Choong YK, Tulsian NK, Nayak D, Idris F, Sivaraman H, Ting DHR, Sylvie A, Mok YK, Kini RM, Sivaraman J. Structure of Aedes aegypti procarboxypeptidase B1 and its binding with Dengue virus for controlling infection. Life Sci Alliance.  2021 Nov 8;5(1):e202101211.
  • Yadav M, Srinivasan M, Tulsian NK, Liu YX, Lin Q, Rosenshine I, Sivaraman J. Binding specificity of type three secretion system effector NleH2 to multi-cargo chaperone CesT and their phosphorylation. Protein Sci. 2021 Dec;30(12):2433-2444.
  • Gavor E, Choong YK, Jobichen C, Mok YK, Kini RM, Sivaraman J. Structure of Aedes aegypti carboxypeptidase B1-inhibitor complex uncover the disparity between mosquito and non-mosquito insect carboxypeptidase inhibition mechanism. Protein Sci. 2021 Dec;30(12):2445-2456.

  • Chichili VPR, Chew TW, Shankar S, Er SY, Chin CF, Jobichen C, Qiurong Pan C, Zhou Y, Yeong FM, Low BC, Sivaraman J. Structural basis for p50RhoGAP BCH domain-mediated regulation of Rho inactivation. PNAS. 2021 May;25;118(21):e2014242118.

  • Singh S, Ng J, Sivaraman J. Exploring the “Other” Subfamily of HECT E3-ligases for Therapeutic Intervention.  Pharmacol Ther. 2021 Aug;224:107809.

  • Sivaraman H, Er SY, Choong YK, Gavor E, Sivaraman J. Structural Basis of the SARS-CoV-2/SARS-CoV Receptor Binding and Small-Molecule Blockers as Potential Therapeutics. Annu Rev Pharmacol Toxicol 2021 Jan 6;61:465-493.

  • Gavor E, Choong YK, Er SY, Sivaraman H, Sivaraman J. Structural Basis of SARS-CoV-2 and SARS-CoV Antibody Interactions. Trends Immunol 2020 Nov;41(11):1006-1022.

  • Singh S, Ng J, Nayak D, Sivaraman J. Structural insights into a HECT-type E3 ligase AREL1 and its ubiquitination activities in vitro. J Biol Chem 2019 Dec; 294(52):19934-19949.

  • Liu BH, Jobichen C, Chia CSB, Chan THM, Tang JP, Chung TXY, Li J, Poulsen A, Hung AW, Koh-Stenta X, Tan YS, Verma CS, Tan HK, Wu CS, Li F, Hill J, Joy J, Yang H, Chai L, Sivaraman J, Tenen DG. Targeting cancer addiction for SALL4 by shifting its transcriptome with a pharmacologic peptide. PNAS 2018 Jul; 24;115(30):E7119-E7128.

  • D Nayak, Sivaraman J. Structure of LNX1: Ubc13~ Ubiquitin Complex Reveals the Role of Additional Motifs for the E3 Ligase Activity of LNX1. J Mol Biol 2018 Apr 13;430(8):1173-1188.

  • Jobichen C, Tan YC, Prabhakar MT, Nayak D, Biswas D, Pannu NS, Hanski E, Sivaraman J. Structure of ScpC, a virulence protease from Streptococcus pyogenes, reveals the functional domains and maturation mechanism. Biochem J 2018 Sep 11;475(17):2847-2860.

  • Lim SK, Lu SY, Kang SA, Tan HJ, Li Z, Adrian Wee ZN, Guan JS, Reddy Chichili VP, Sivaraman J, Putti T, Thike AA, Tan PH, Sudol M, Virshup DM, Chan SW, Hong W, Lim YP. Wnt Signaling Promotes Breast Cancer by Blocking ITCH-Mediated Degradation of YAP/TAZ Transcriptional Coactivator WBP2. Cancer Research 2016 Nov 1;76(21):6278-6289.

  • Gu Y, Tang X, Zhang X, Song C, Zheng M, Wang K, Zhang J, Ng MH, Hew CL, Li S, Xia N, Sivaraman J. Structural Basis for the Neutralization of Hepatitis E Virus by a Cross-genotype Antibody. Cell Research 2015 May; 25(5):604-20.

  • Abhilash Padavannil, Chacko Jobichen, Yang Qinghua, J Seetharaman, Adrian Velazquez-Campoy, Liu Yang, Shen Q. Pan, Sivaraman J, Dimerization of VirD2 Binding Protein is essential for Agrobacterium induced tumor formation in plants PLoS Pathogens 2014 Mar 13;10(3):e1003948

  • Abhilash Padavannil, Chacko Jobichen, Erez Mills, Adrian Velazquez-Campoy, Mo Li, Ka Yin Leung, Yu Keung Mok, Ilan Rosenshine, Sivaraman J. Structure of GrlR-GrlA Complex that Prevents GrlA Activation of Virulence Genes Nature Commun. 2013;4:2546.

  • Thangavelu K, Pan CQ, Karlberg T, Balaji G, Uttamchandani M, Suresh V, Schüler H, Low BC, Sivaraman J (2012) Structural basis for the allosteric inhibitory mechanism of human kidney-type glutaminase (KGA) and its regulation by Raf-Mek-Erk signaling in cancer cell metabolism. PNAS (2012). May 15;109(20):7705-10.

  • Mukherjee M, Chow SY, Yusoff P, Seetharaman J, Ng C, Sinniah S, Koh XW, Asgar NF, Li D, Yim D, Jackson RA, Yew J, Qian J, Iyu A, Lim YP, Zhou X, Sze SK, Guy GR, Sivaraman J (2012) Structure of a novel phosphotyrosine-binding domain in Hakai that targets E-cadherin. EMBO J (2012) Jan 17; 31(5):1308-19.

  • Tang, X., Yang, C., Gu, Y., Song, C., Zhang, X., Wang, Y., Zhang, J., Hew, C.L., Li, S., Xia, N. Sivaraman, J (2011) Structural basis for the neutralization and genotype specificity of hepatitis E virus. PNAS . 108, 10266-10271.

  • Zhou, X., Kini, R.M. and Sivaraman, J., (2011) Application of isothermal titration calorimetry and column chromatography for identification of biomolecular targets. Nature Protocols , 6, 158-165. Faculty of 1000 (F1000) recommended this paper as a most important article in biology and medical research publications.

  • Husain, N., Obranic, S., Koscinski, L., Seetharaman, J., Babic, F., Bujnicki, J.M., Maravic-Vlahovicek, G. and Sivaraman, J., (2011) Structural basis for the methylation of A1408 in 16S rRNA by a panaminoglycoside resistance methyltransferase NpmA from a clinical isolate and analysis of the NpmA interactions with the 30S ribosomal subunit. Nucleic Acids Research , 39, 1903-1918.

  • Husain, N., Tkaczuk, K.L., Tulsidas, S.R., Kaminska, K.H., Cubrilo, S., Maravic-Vlahovicek, G., Bujnicki, J.M. and Sivaraman, J., (2010) Structural basis for the methylation of G1405 in 16S rRNA by aminoglycoside resistance methyltransferase Sgm from an antibiotic producer: a diversity of active sites in m7G methyltransferases. Nucleic Acids Research , 38, 4120-4132.

  • Li, S., Tang, X., Seetharaman, J., Yang, C., Gu, Y., Zhang, J., Du, H., Shih, J.W., Hew, C.L., Sivaraman, J and Xia. (2009) Dimerization of hepatitis E virus capsid protein E2s domain is essential for virus-host interaction. PLoS Pathogens , 5, e1000537.

  • Chua, T.K., Bujnicki, J.M., Tan, T.C., Huynh, F., Patel, B.K. and Sivaraman, J., (2008) The structure of sucrose phosphate synthase from Halothermothrix orenii reveals its mechanism of action and binding mode. Plant Cell , 20, 1059-1072.

  • Ng, C., Jackson, R.A., Buschdorf, J.P., Sun, Q., Guy, G.R. and Sivaraman, J., (2008) Structural basis for a novel intrapeptidyl H-bond and reverse binding of c-Cbl-TKB domain substrates. EMBO J. , 27, 804-816.

  • Sunita, S., Purta, E., Durawa, M., Tkaczuk, K.L., Swaathi, J., Bujnicki, J.M. and Sivaraman, J., , (2007) Functional specialization of domains tandemly duplicated within 16S rRNA methyltransferase RsmC. Nucleic Acids Research , 35, 4264-4274.

  • Jobichen, C., Li, M., Yerushalmi, G., Tan, Y.W., Mok, Y.K., Rosenshine, I., Leung, K.Y. and Sivaraman, J., (2007) Structure of GrlR and the implication of its EDED motif in mediating the regulation of type III secretion system in EHEC. PLoS Pathogens , 3, e69.

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