the radhakrishnan lab at northwestern university





selected publications

  • Zhang, Y., Zhang, Z., Demeler, B., & Radhakrishnan, I. (2006). Coupled unfolding and dimerization by the PAH2 domain of the mammalian Sin3A corepressor. J. Mol. Biol. 360, 7-14.
  • Swanson, K.A., Hicke, L. & Radhakrishnan, I. (2006). Structural basis for monoubiquitin recognition by the Ede1 UBA domain. J. Mol. Biol. 358, 713-724.
  • Little, T.H., Zhang, Y., Matulis, C.K., Weck, J., Zhang, Z., Ramachandran, A., Mayo, K.E. & Radhakrishnan, I. (2005). Sequence-specific DNA recognition by Steroidogenic Factor 1: A helix at the carboxy-terminus of the DNA binding domain is necessary for complex stability. Mol Endocrinol. 20, 831-843.
  • Huang, K., Wu, C.W., Sanborn, T.J., Patch, J.A., Kirshenbaum, K., Zuckermann, R.N., Barron, A.E. & Radhakrishnan, I. (2006). A threaded loop conformation adopted by a family of peptoid nonamers. J. Am. Chem. Soc. 128, 1733-1738.
  • French, M., Swanson, K., Shih, S.C., Radhakrishnan, I. & Hicke, L. (2005). Identification and characterization of modular domains that bind ubiquitin. Methods Enzymol 399, 135-57.

  • Swanson, K.A., Knoepfler, P.S., Huang, K., Kang, R.S., Cowley, S.M., Laherty, C.D., Eisenman, R.N., and Radhakrishnan, I. (2004). HBP1 and Mad1 repressors bind the Sin3 corepressor PAH2 domain with opposite helical orientations. Nat. Struct. Mol. Biol. 11, 738-746.

  • Pham, J., Radhakrishnan, I., and Sontheimer, E.J. (2004). Thermodynamic and structural characterization of 2'-nitrogen modified RNA duplexes. Nucleic Acids Res. 32, 3446-3455.

  • Salerno, W.J., Seaver, S.M., Armstrong, B.R., and Radhakrishnan, I. (2004). MONSTER: Inferring non-covalent interactions in macromolecular structures from atomic coordinate data. Nucleic Acids Res. 32, W566-W568.

  • Pearce, S.T., Liu, H., Radhakrishnan, I., Safe, S., and Jordan, V.C. (2004). Interaction of the aryl hydrocarbon receptor ligand 6-methyl-1,3,8-trichlorodibenzofuran (MCDF) with estrogen receptor alpha. Cancer Res. 64, 2889-2897.

  • Cowley, S.M., Kang, R.S., Frangioni, J.V., Yada, J., DeGrand, A.M., Radhakrishnan, I., and Eisenman, R.N. (2004). Functional analysis of the Mad1-mSin3A repressor-corepressor interaction reveals determinants of specificity, affinity and transcriptional response. Mol. Cell. Biol. 24, 2698-2709.

  • Swanson, K.A., Kang, R.S., Stamenova, S.D., Hicke, L., and Radhakrishnan, I. (2003). Solution structure of Vps27 UIM-ubiquitin complex important for endosomal sorting and receptor downregulation. EMBO J. 22, 4597-4606.

  • Kang, R.S., Daniels, C.M., Francis, S.A., Shih, S.C., Salerno, W.J., Hicke, L., and Radhakrishnan, I. (2003). Solution structure of a CUE-ubiquitin complex reveals a conserved mode of ubiquitin binding. Cell 113, 621-630.

  • Tai, L.-J., McFall, S.M., Huang, K., Demeler, B., Fox, S.G., Brubaker, K., Radhakrishnan, I., and Morimoto, R.I. (2001). Structure-function analyses of a heat shock factor binding protein reveals a protein composed solely of a high-conserved and dynamic coiled-coil trimerization domain. J. Biol. Chem 277, 735-745.

  • Brubaker, K., Cowley, S.M., Huang, K., Loo, L., Yochum, G.S., Ayer, D.E., Eisenman, R.N., and Radhakrishnan, I. (2000). Solution structure of the interacting domains of the Mad-Sin3 complex: Implications for recruitment of a chromatin-modifying repression complex. Cell 103, 655-665.

  • Tsui, V., Radhakrishnan, I., Wright, P.E., and Case, D.A. (2000). NMR and molecular dynamics studies of hydration of a zinc finger-DNA complex. J. Mol. Biol. 302, 1101-1117.

  • Parker, D., Rivera, M., Zor, T., Henrion-Caude, A., Radhakrishnan, I., Kumar, A., Shapiro, L.H., Wright, P.E., Montminy, M., and Brindle, P.K. (1999). Role of secondary structure in discrimination between constitutive and inducible activators. Mol. Cell. Biol. 19, 5601-5607.

  • Radhakrishnan, I., Pérez-Alvarado, G.C., Parker, D., Dyson, H.J., Montminy, M.R., and Wright, P.E. (1999). Structural analyses of CREB-CBP transcriptional activator-coactivator complexes by NMR Spectroscopy: Implications for mapping the boundaries of structural domains. J. Mol. Biol. 287, 859-865.

  • Parker, D., Jhala, U., Radhakrishnan, I., Yaffe, M., Reyes, C., Shulman, A., Cantley, L., Wright, P.E., and Montminy, M. (1998). Analysis of an activator:coactivator complex reveals an essential role for secondary structure in transcriptional activation. Mol. Cell 2, 353-359.

  • Foster, M.P., Wuttke, D.S., Clemens, K.R., Jahnke, W., Radhakrishnan, I., Tennant, L., Reymond, M., Chung, J., and Wright, P.E. (1998). Chemical shift as a probe of molecular interfaces: NMR studies of DNA binding by the three amino-terminal zinc finger domains from transcription factor IIIA. J. Biomol. NMR 12, 51-71.

  • Radhakrishnan, I., Pérez-Alvarado, G.C., Dyson, H.J., and Wright, P.E. (1998). Conformational preferences in the Ser133-phosphorylated and non-phosphorylated forms of the kinase inducible transactivation domain of CREB. FEBS Lett 430, 317-322.

  • Radhakrishnan, I., Pérez-Alvarado, G.C., Parker, D., Dyson, H.J., Montminy, M.R., and Wright, P.E. (1997). Solution structure of the KIX binding domain of CBP bound to the transactivation domain of CREB: A model for activator:coactivator interactions. Cell 91, 741-752.

  • Foster, M.P., Wuttke, D.S., Radhakrishnan, I., Case, D.A., Gottesfeld, J.M., and Wright, P.E. (1997). Domain packing and dynamics in the DNA complex of the N-terminal zinc fingers of TFIIIA. Nature Struct. Biol. 4, 605-608.

  • Greenbaum, N.L., Radhakrishnan, I., Hirsh, D., and Patel, D.J. (1996). Solution structure of the donor site of a trans-splicing RNA. Structure 4, 725-733.



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last updated february 2007