Structural Investigations on the Nodal-Cripto Binding: A Theoretical and Experimental Approach (562 views)
Biopolymers (ISSN: 0006-3525, 0006-6352, 0006-3525print), 2010 Nov; 93(11): 1011-1021.
Export to BibTeX Export to EndNote
Paper type: Journal Article, Research Support, Non-U. S. Gov'T,
Impact factor: 2.572, 5-year impact factor: 2.563
Url: http://www.scopus.com/inward/record.url?eid=2-s2.0-77956160912&partnerID=40&md5=2ab55f5afe327ee5345f248fed4c6ee1
Keywords: Binding, Homology Modeling, K D, Peptide, Tgf-β, Binding Affinities, Embryonic Development, Experimental Approaches, K D< Sub>, Molecular Models, Morphogen, Nodal Region, Potential Binding, Receptor-Like Kinase, Structural Information, Structural Investigation, Surface Plasmon Resonance Binding Assays, Synthetic Peptide, Transforming Growth Factors, Tumor Progressions, Binding Energy, Activin Receptor Like Kinase 1, Nodal Signaling Protein, Protein Cripto, Unclassified Drug, Amino Acid Sequence, Article, Experimental Study, Human, Molecular Docking, Nonhuman, Nucleotide Sequence, Protein Binding, Protein Protein Interaction, Protein Structure, Sequence Homology, Theoretical Study, Type I, Animals, Binding Sites, Epidermal Growth Factor, Membrane Glycoproteins, Molecular Sequence Data, Molecular Structure, Multiprotein Complexes, Neoplasm Proteins, Nodal Protein, Nuclear Magnetic Resonance, Biomolecular, Recombinant Proteins, Type I Chemistry Metabolism, Epidermal Growth Factor Chemistry Genetics Metabolism, Gpi-Linked Proteins, In Vitro Techniques, Intercellular Signaling Peptides And Proteins, Membrane Glycoproteins Chemistry Genetics Metabolism, Multiprotein Complexes Chemistry, Neoplasm Proteins Chemistry Genetics Metabolism, Nodal Protein Chemistry Genetics Metabolism, Recombinant Proteins Chemistry Genetics Metabolism,
Affiliations:
*** IBB - CNR ***
Department of Chemistry P. Corradini, University of Naples Federico II, Via Cintia 45, 80126 Naples, Italy
Department of Biological Sciences, University of Naples Federico II, Via Mezzocannone 16, 80134 Naples, Italy
Institute of Biostructures and Bioimaging, CNR, Via Mezzocannone, 16, 80134 Naples, Italy
References:
Brennan, J., Norris, D.P., Robertson, E.J., (2002) Genes Dev, 16, pp. 2339-234
Eimon, P.M., Harland, R.M., (2002) Development, 129, pp. 3089-3103
Nonaka, S., Shiratori, H., Saijoh, Y., Hamada, H., (2002) Nature, 418, pp. 96-99
Oh, S.P., Li, E., (1997) Genes Dev, 11, pp. 1812-1826
Reissmann, E., Jornvall, H., Blokzijl, A., Andersson, O., Chang, C., Minchiotti, G., Persico, M.G., Brivanlou, A.H., (2001) Genes Dev, 15, pp. 2010-2022
Massague, J., (1998) Annu Rev Biochem, 67, pp. 753-791
Whitman, M., (1998) Genes Dev, 12, pp. 2445-2462
Massague, J., Wotton, D., (2000) EMBO J, 19, pp. 1745-1754
Chen, C., Ware, S.M., Sato, A., Houston-Hawkins, D.E., Habas, R., Matzuk, M.M., Shen, M.M., Brown, C.W., (2006) Development, 133, pp. 319-329
Ciccodicola, A., Dono, R., Obici, S., Simeone, A., Zollo, M., Persico, M.G., (1989) EMBO J, 8, pp. 1987-1991
Parisi, S., D'Andrea, D., Lago, C.T., Adamson, E.D., Persico, M.G., Minchiotti, G., (2003) J Cell Biol, 163, pp. 303-314
Saloman, D.S., Bianco, C., Ebert, A.D., Khan, N., De Santis, I., Normanno, M., Wechselberger, N., Persico, W.J., (2000) G. Endocr Relat Cancer, 7, pp. 199-226
Schier, A.F., Shen, M.M., (2000) Nature, 403, pp. 385-389
Schiffer, S.G., Foley, S., Kaffashan, A., Hronowski, X., Zichittella, A.E., Yeo, C.Y., Miatkowski, K., Williams, K.P., (2001) J Biol Chem, 276, pp. 37769-37778
Shen, M.M., (2003) J Clin Invest, 112, pp. 500-502
Yan, Y.T., Liu, J.J., Luo, Y.C.E., Haltiwanger, R.S., Abate-Shen, C., Shen, M.M., (2002) Mol Cell Biol, 22, pp. 4439-4449
Yeo, C., Whitman, M., (2001) Mol Cell, 7, pp. 949-957
Bianco, C., Adkins, H.B., Wechselberger, C., Seno, M., Normanno, N., De Luca, A., Sun, Y., Salomon, D.S., (2002) Mol Cell Biol, 22, pp. 2586-2597
Xu, G., Zhong, Y., Munir, S., Yang, B.B., Tsang, B.K., Peng, C., (2004) J Clin Endocrinol Metab, 89, pp. 5523-5534
Zhang, Y.Q., Sterling, L., Stotland, A., Hua, H., Kritzik, M., Sarvetnick, N., (2008) Dev Dyn, 237, pp. 1255-1267
Lin, S.J., Lerch, T.F., Cook, R.W., Jardetzky, T.S., Woodruff, T.K., (2006) Reproduction, 132, pp. 179-190
Topczewska, J.M., Postovit, L.M., Margaryan, N.V., Sam, A., Hess, A.R., Wheaton, W.W., Nickoloff, B.J., Hendrix, M.J., (2006) Nat Med, 12, pp. 925-932
Adkins, H.B., Bianco, C., Schiffer, S.G., Rayhorn, P., Zafari, M., Cheung, A.E., Orozco, O., Sanicola, M., (2003) J Clin Invest, 112, pp. 575-587
Xing, P.X., Hu, X.F., Pietersz, G.A., Hosick, H.L., McKenzie, I.F., (2004) Cancer Res, 64, pp. 4018-4023
Calvanese, L., Saporito, A., Marasco, D., D'Auria, G., Minchiotti, G., Pedone, C., Paolillo, L., Ruvo, M., (2006) J Med Chem, 49, pp. 7054-7062
Greenwald, J., Groppe, J., Gray, P., Wiater, E., Kwiatkowski, W., Vale, W., Choe, S., (2003) Mol Cell, 11, pp. 605-617
Greenwald, J., Vega, M.E., Allendorph, G.P., Fischer, W.H., Vale, W., Choe, S., (2004) Mol Cell, 15, pp. 485-489
Thompson, T.B., Woodruff, T.K., Jardetzky, T.S., (2003) EMBO J, 22, pp. 1555-1566
Weber, D., Kotzsch, A., Nickel, J., Harth, S., Seher, A., Mueller, U., Sebald, W., Mueller, T.D., (2007) BMC Struct Biol, 7, p. 6
Soding, J., Biegert, A., Lupas, A.N., (2005) Nucleic Acids Res, 33, pp. W244-W248
Krissinel, E., Henrick, K., (2004) Acta Crystallogr D Biol Crystallogr, 60, pp. 2256-2268
Soding, J., (2005) Bioinformatics, 21, pp. 951-960
Sali, A., Blundell, T.L., (1993) J Mol Biol, 234, pp. 779-815
Hooft, R.W., Vriend, G., Sander, C., Abola, E.E., (1996) Nature, 381, p. 272
Vriend, G., (1990) J Mol Graph, 8, pp. 52-56
Bowie, J.U., Luthy, R., Eisenberg, D., (1991) Science, 253, pp. 164-170
Luthy, R., Bowie, J.U., Eisenberg, D., (1992) Nature, 356, pp. 83-85
Wallner, B., Elofsson, A., (2003) Protein Sci, 12, pp. 1073-1086
Scheufler, C., Sebald, W., Hulsmeyer, M., (1999) J Mol Biol, 287, pp. 103-115
Kirsch, T., Sebald, W., Dreyer, M.K., (2000) Nat Struct Biol, 7, pp. 492-496
Van Der Spoel, D., Lindahl, E., Hess, B., Groenhof, G., Mark, A.E., Berendsen, H.J., (2005) J Comput Chem, 26, pp. 1701-1718
Minchiotti, G., Manco, G., Parisi, S., Lago, C.T., Rosa, F., Persico, M.G., (2001) Development, 128, pp. 4501-4510
Marasco, D., Saporito, A., Ponticelli, S., Chambery, A., De Falco, S., Pedone, C., Minchiotti, G., Ruvo, M., (2006) Proteins, 64, pp. 779-788
Jackson, R.M., Gabb, H.A., Sternberg, M.J., (1998) J Mol Biol, 276, pp. 265-285
Moont, G., Gabb, H.A., Sternberg, M.J., (1999) Proteins, 35, pp. 364-373
Shi, S., Ge, C., Luo, Y., Hou, X., Haltiwanger, R.S., Stanley, P., (2007) J Biol Chem, 282, pp. 20133-20141
Crowley, P.B., Golovin, A., (2005) Proteins, 59, pp. 231-239
Apweiler, R., Bairoch, A., Wu, C.H., Barker, W.C., Boeckmann, B., Ferro, S., Gasteiger, E., Yeh, L.S., (2004) Nucleic Acids Res, 32, pp. D115-D119
Thompson, J.D., Higgins, D.G., Gibson, T.J., (1994) Nucleic Acids Res, 22, pp. 4673-4680
Wuthrich, K., (1986) NMR of Proteins and Nucleic Acids
Wishart, D.S., Sykes, B.D., Richards, F.M., (1991) J Mol Biol, 222, pp. 311-333
Fields, G.B., Noble, R.L., (1990) Int J Pept Protein Res, 35, pp. 161-214
Natsume, T., Tomita, S., Iemura, S., Kinto, N., Yamaguchi, A., Ueno, N., (1997) J Biol Chem, 272, pp. 11535-11540
Bax, A., Davis, D.G., (1985) J Magn Res, 65, pp. 355-360
Bax, A., (1985) J Magn Res, 63, pp. 207-213
States, D., Haberhorn, R., Ruben, D., (1982) J Magn Res, 48, pp. 286-292
Piotto, M., Saudek, V., Sklenar, V., (1992) J Biomol NMR, 2, pp. 661-665
Delaglio, F., Grzesiek, S., Vuister, G.W., Zhu, G., Pfeifer, J., Bax, A., (1995) J Biomol NMR, 6, pp. 277-293
Johnson, B.A., (2004) Methods Mol Biol, 278, pp. 313-352
Guntert, P., Braun, W., Wuthrich, K., (1991) J Mol Biol, 217, pp. 517-530
Guntert, P., (2004) Methods Mol Biol, 278, pp. 353-378
Karplus, M., (1963) J Am Chem Soc, 85, pp. 2870-2871
Pearlman, D.A., Case, D.A., Caldwell, J.W., Ross, W.S., Cheatham, T.E.III., DeBolt, S., Ferguson, D., Kollman, P.A., (1995) Comp Phys Commun, 91, pp. 1-41
Koradi, R., Billeter, M., Wuthrich, K., (1996) J Mol Graph, 14, pp. 29-32. , 51-55
van Gunsteren, W.F., Billeter, S.R., Eising, A., Hunenberger, P.H., Kruger, P., Mark, A.E., Scott, W.R.P., Tironi, I.G., (1996) Biomolecular Simulations: The GROMOS96 Manual and User Guide
VdF Hochschulverlag ETHZ: Zurich
Hess, B., Bekker, H., Berendsen, H.J.C., Fraaije, J.G.E.M., (1997) J Comput Chem, 18, pp. 1463-1472
Darden, T., York, D., Pedersen, L., (1993) J Chem Phys, 98, pp. 10089-10092
Berendsen, H.J.C., Vanderspoel, D., Vandrunen, R., (1995) Comp Phys Commun, 91, pp. 43-56
Gabb, H.A., Jackson, R.M., Sternberg, M.J., (1997) J Mol Biol, 272, pp. 106-120
Eimon, P. M., Harland, R. M., (2002) Development, 129, pp. 3089-3103
Oh, S. P., Li, E., (1997) Genes Dev, 11, pp. 1812-1826
Chen, C., Ware, S. M., Sato, A., Houston-Hawkins, D. E., Habas, R., Matzuk, M. M., Shen, M. M., Brown, C. W., (2006) Development, 133, pp. 319-329
Saloman, D. S., Bianco, C., Ebert, A. D., Khan, N., De Santis, I., Normanno, M., Wechselberger, N., Persico, W. J., (2000) G. Endocr Relat Cancer, 7, pp. 199-226
Schier, A. F., Shen, M. M., (2000) Nature, 403, pp. 385-389
Schiffer, S. G., Foley, S., Kaffashan, A., Hronowski, X., Zichittella, A. E., Yeo, C. Y., Miatkowski, K., Williams, K. P., (2001) J Biol Chem, 276, pp. 37769-37778
Shen, M. M., (2003) J Clin Invest, 112, pp. 500-502
Yan, Y. T., Liu, J. J., Luo, Y. C. E., Haltiwanger, R. S., Abate-Shen, C., Shen, M. M., (2002) Mol Cell Biol, 22, pp. 4439-4449
Zhang, Y. Q., Sterling, L., Stotland, A., Hua, H., Kritzik, M., Sarvetnick, N., (2008) Dev Dyn, 237, pp. 1255-1267
Lin, S. J., Lerch, T. F., Cook, R. W., Jardetzky, T. S., Woodruff, T. K., (2006) Reproduction, 132, pp. 179-190
Topczewska, J. M., Postovit, L. M., Margaryan, N. V., Sam, A., Hess, A. R., Wheaton, W. W., Nickoloff, B. J., Hendrix, M. J., (2006) Nat Med, 12, pp. 925-932
Adkins, H. B., Bianco, C., Schiffer, S. G., Rayhorn, P., Zafari, M., Cheung, A. E., Orozco, O., Sanicola, M., (2003) J Clin Invest, 112, pp. 575-587
Xing, P. X., Hu, X. F., Pietersz, G. A., Hosick, H. L., McKenzie, I. F., (2004) Cancer Res, 64, pp. 4018-4023
Thompson, T. B., Woodruff, T. K., Jardetzky, T. S., (2003) EMBO J, 22, pp. 1555-1566
Hooft, R. W., Vriend, G., Sander, C., Abola, E. E., (1996) Nature, 381, p. 272
Bowie, J. U., Luthy, R., Eisenberg, D., (1991) Science, 253, pp. 164-170
Jackson, R. M., Gabb, H. A., Sternberg, M. J., (1998) J Mol Biol, 276, pp. 265-285
Crowley, P. B., Golovin, A., (2005) Proteins, 59, pp. 231-239
Thompson, J. D., Higgins, D. G., Gibson, T. J., (1994) Nucleic Acids Res, 22, pp. 4673-4680
Wishart, D. S., Sykes, B. D., Richards, F. M., (1991) J Mol Biol, 222, pp. 311-333
Fields, G. B., Noble, R. L., (1990) Int J Pept Protein Res, 35, pp. 161-214
Bax, A., Davis, D. G., (1985) J Magn Res, 65, pp. 355-360
Johnson, B. A., (2004) Methods Mol Biol, 278, pp. 313-352
Pearlman, D. A., Case, D. A., Caldwell, J. W., Ross, W. S., Cheatham, T. E. III., DeBolt, S., Ferguson, D., Kollman, P. A., (1995) Comp Phys Commun, 91, pp. 1-41
van Gunsteren, W. F., Billeter, S. R., Eising, A., Hunenberger, P. H., Kruger, P., Mark, A. E., Scott, W. R. P., Tironi, I. G., (1996) Biomolecular Simulations: The GROMOS96 Manual and User Guide
Gabb, H. A., Jackson, R. M., Sternberg, M. J., (1997) J Mol Biol, 272, pp. 106-120
Biopolymers (ISSN: 0006-3525, 0006-6352, 0006-3525print), 2010 Nov; 93(11): 1011-1021.
Export to BibTeX Export to EndNote
Paper type: Journal Article, Research Support, Non-U. S. Gov'T,
Impact factor: 2.572, 5-year impact factor: 2.563
Url: http://www.scopus.com/inward/record.url?eid=2-s2.0-77956160912&partnerID=40&md5=2ab55f5afe327ee5345f248fed4c6ee1
Keywords: Binding, Homology Modeling, K D, Peptide, Tgf-β, Binding Affinities, Embryonic Development, Experimental Approaches, K D< Sub>, Molecular Models, Morphogen, Nodal Region, Potential Binding, Receptor-Like Kinase, Structural Information, Structural Investigation, Surface Plasmon Resonance Binding Assays, Synthetic Peptide, Transforming Growth Factors, Tumor Progressions, Binding Energy, Activin Receptor Like Kinase 1, Nodal Signaling Protein, Protein Cripto, Unclassified Drug, Amino Acid Sequence, Article, Experimental Study, Human, Molecular Docking, Nonhuman, Nucleotide Sequence, Protein Binding, Protein Protein Interaction, Protein Structure, Sequence Homology, Theoretical Study, Type I, Animals, Binding Sites, Epidermal Growth Factor, Membrane Glycoproteins, Molecular Sequence Data, Molecular Structure, Multiprotein Complexes, Neoplasm Proteins, Nodal Protein, Nuclear Magnetic Resonance, Biomolecular, Recombinant Proteins, Type I Chemistry Metabolism, Epidermal Growth Factor Chemistry Genetics Metabolism, Gpi-Linked Proteins, In Vitro Techniques, Intercellular Signaling Peptides And Proteins, Membrane Glycoproteins Chemistry Genetics Metabolism, Multiprotein Complexes Chemistry, Neoplasm Proteins Chemistry Genetics Metabolism, Nodal Protein Chemistry Genetics Metabolism, Recombinant Proteins Chemistry Genetics Metabolism,
Affiliations:
*** IBB - CNR ***
Department of Chemistry P. Corradini, University of Naples Federico II, Via Cintia 45, 80126 Naples, Italy
Department of Biological Sciences, University of Naples Federico II, Via Mezzocannone 16, 80134 Naples, Italy
Institute of Biostructures and Bioimaging, CNR, Via Mezzocannone, 16, 80134 Naples, Italy
References:
Brennan, J., Norris, D.P., Robertson, E.J., (2002) Genes Dev, 16, pp. 2339-234
Eimon, P.M., Harland, R.M., (2002) Development, 129, pp. 3089-3103
Nonaka, S., Shiratori, H., Saijoh, Y., Hamada, H., (2002) Nature, 418, pp. 96-99
Oh, S.P., Li, E., (1997) Genes Dev, 11, pp. 1812-1826
Reissmann, E., Jornvall, H., Blokzijl, A., Andersson, O., Chang, C., Minchiotti, G., Persico, M.G., Brivanlou, A.H., (2001) Genes Dev, 15, pp. 2010-2022
Massague, J., (1998) Annu Rev Biochem, 67, pp. 753-791
Whitman, M., (1998) Genes Dev, 12, pp. 2445-2462
Massague, J., Wotton, D., (2000) EMBO J, 19, pp. 1745-1754
Chen, C., Ware, S.M., Sato, A., Houston-Hawkins, D.E., Habas, R., Matzuk, M.M., Shen, M.M., Brown, C.W., (2006) Development, 133, pp. 319-329
Ciccodicola, A., Dono, R., Obici, S., Simeone, A., Zollo, M., Persico, M.G., (1989) EMBO J, 8, pp. 1987-1991
Parisi, S., D'Andrea, D., Lago, C.T., Adamson, E.D., Persico, M.G., Minchiotti, G., (2003) J Cell Biol, 163, pp. 303-314
Saloman, D.S., Bianco, C., Ebert, A.D., Khan, N., De Santis, I., Normanno, M., Wechselberger, N., Persico, W.J., (2000) G. Endocr Relat Cancer, 7, pp. 199-226
Schier, A.F., Shen, M.M., (2000) Nature, 403, pp. 385-389
Schiffer, S.G., Foley, S., Kaffashan, A., Hronowski, X., Zichittella, A.E., Yeo, C.Y., Miatkowski, K., Williams, K.P., (2001) J Biol Chem, 276, pp. 37769-37778
Shen, M.M., (2003) J Clin Invest, 112, pp. 500-502
Yan, Y.T., Liu, J.J., Luo, Y.C.E., Haltiwanger, R.S., Abate-Shen, C., Shen, M.M., (2002) Mol Cell Biol, 22, pp. 4439-4449
Yeo, C., Whitman, M., (2001) Mol Cell, 7, pp. 949-957
Bianco, C., Adkins, H.B., Wechselberger, C., Seno, M., Normanno, N., De Luca, A., Sun, Y., Salomon, D.S., (2002) Mol Cell Biol, 22, pp. 2586-2597
Xu, G., Zhong, Y., Munir, S., Yang, B.B., Tsang, B.K., Peng, C., (2004) J Clin Endocrinol Metab, 89, pp. 5523-5534
Zhang, Y.Q., Sterling, L., Stotland, A., Hua, H., Kritzik, M., Sarvetnick, N., (2008) Dev Dyn, 237, pp. 1255-1267
Lin, S.J., Lerch, T.F., Cook, R.W., Jardetzky, T.S., Woodruff, T.K., (2006) Reproduction, 132, pp. 179-190
Topczewska, J.M., Postovit, L.M., Margaryan, N.V., Sam, A., Hess, A.R., Wheaton, W.W., Nickoloff, B.J., Hendrix, M.J., (2006) Nat Med, 12, pp. 925-932
Adkins, H.B., Bianco, C., Schiffer, S.G., Rayhorn, P., Zafari, M., Cheung, A.E., Orozco, O., Sanicola, M., (2003) J Clin Invest, 112, pp. 575-587
Xing, P.X., Hu, X.F., Pietersz, G.A., Hosick, H.L., McKenzie, I.F., (2004) Cancer Res, 64, pp. 4018-4023
Calvanese, L., Saporito, A., Marasco, D., D'Auria, G., Minchiotti, G., Pedone, C., Paolillo, L., Ruvo, M., (2006) J Med Chem, 49, pp. 7054-7062
Greenwald, J., Groppe, J., Gray, P., Wiater, E., Kwiatkowski, W., Vale, W., Choe, S., (2003) Mol Cell, 11, pp. 605-617
Greenwald, J., Vega, M.E., Allendorph, G.P., Fischer, W.H., Vale, W., Choe, S., (2004) Mol Cell, 15, pp. 485-489
Thompson, T.B., Woodruff, T.K., Jardetzky, T.S., (2003) EMBO J, 22, pp. 1555-1566
Weber, D., Kotzsch, A., Nickel, J., Harth, S., Seher, A., Mueller, U., Sebald, W., Mueller, T.D., (2007) BMC Struct Biol, 7, p. 6
Soding, J., Biegert, A., Lupas, A.N., (2005) Nucleic Acids Res, 33, pp. W244-W248
Krissinel, E., Henrick, K., (2004) Acta Crystallogr D Biol Crystallogr, 60, pp. 2256-2268
Soding, J., (2005) Bioinformatics, 21, pp. 951-960
Sali, A., Blundell, T.L., (1993) J Mol Biol, 234, pp. 779-815
Hooft, R.W., Vriend, G., Sander, C., Abola, E.E., (1996) Nature, 381, p. 272
Vriend, G., (1990) J Mol Graph, 8, pp. 52-56
Bowie, J.U., Luthy, R., Eisenberg, D., (1991) Science, 253, pp. 164-170
Luthy, R., Bowie, J.U., Eisenberg, D., (1992) Nature, 356, pp. 83-85
Wallner, B., Elofsson, A., (2003) Protein Sci, 12, pp. 1073-1086
Scheufler, C., Sebald, W., Hulsmeyer, M., (1999) J Mol Biol, 287, pp. 103-115
Kirsch, T., Sebald, W., Dreyer, M.K., (2000) Nat Struct Biol, 7, pp. 492-496
Van Der Spoel, D., Lindahl, E., Hess, B., Groenhof, G., Mark, A.E., Berendsen, H.J., (2005) J Comput Chem, 26, pp. 1701-1718
Minchiotti, G., Manco, G., Parisi, S., Lago, C.T., Rosa, F., Persico, M.G., (2001) Development, 128, pp. 4501-4510
Marasco, D., Saporito, A., Ponticelli, S., Chambery, A., De Falco, S., Pedone, C., Minchiotti, G., Ruvo, M., (2006) Proteins, 64, pp. 779-788
Jackson, R.M., Gabb, H.A., Sternberg, M.J., (1998) J Mol Biol, 276, pp. 265-285
Moont, G., Gabb, H.A., Sternberg, M.J., (1999) Proteins, 35, pp. 364-373
Shi, S., Ge, C., Luo, Y., Hou, X., Haltiwanger, R.S., Stanley, P., (2007) J Biol Chem, 282, pp. 20133-20141
Crowley, P.B., Golovin, A., (2005) Proteins, 59, pp. 231-239
Apweiler, R., Bairoch, A., Wu, C.H., Barker, W.C., Boeckmann, B., Ferro, S., Gasteiger, E., Yeh, L.S., (2004) Nucleic Acids Res, 32, pp. D115-D119
Thompson, J.D., Higgins, D.G., Gibson, T.J., (1994) Nucleic Acids Res, 22, pp. 4673-4680
Wuthrich, K., (1986) NMR of Proteins and Nucleic Acids
Wishart, D.S., Sykes, B.D., Richards, F.M., (1991) J Mol Biol, 222, pp. 311-333
Fields, G.B., Noble, R.L., (1990) Int J Pept Protein Res, 35, pp. 161-214
Natsume, T., Tomita, S., Iemura, S., Kinto, N., Yamaguchi, A., Ueno, N., (1997) J Biol Chem, 272, pp. 11535-11540
Bax, A., Davis, D.G., (1985) J Magn Res, 65, pp. 355-360
Bax, A., (1985) J Magn Res, 63, pp. 207-213
States, D., Haberhorn, R., Ruben, D., (1982) J Magn Res, 48, pp. 286-292
Piotto, M., Saudek, V., Sklenar, V., (1992) J Biomol NMR, 2, pp. 661-665
Delaglio, F., Grzesiek, S., Vuister, G.W., Zhu, G., Pfeifer, J., Bax, A., (1995) J Biomol NMR, 6, pp. 277-293
Johnson, B.A., (2004) Methods Mol Biol, 278, pp. 313-352
Guntert, P., Braun, W., Wuthrich, K., (1991) J Mol Biol, 217, pp. 517-530
Guntert, P., (2004) Methods Mol Biol, 278, pp. 353-378
Karplus, M., (1963) J Am Chem Soc, 85, pp. 2870-2871
Pearlman, D.A., Case, D.A., Caldwell, J.W., Ross, W.S., Cheatham, T.E.III., DeBolt, S., Ferguson, D., Kollman, P.A., (1995) Comp Phys Commun, 91, pp. 1-41
Koradi, R., Billeter, M., Wuthrich, K., (1996) J Mol Graph, 14, pp. 29-32. , 51-55
van Gunsteren, W.F., Billeter, S.R., Eising, A., Hunenberger, P.H., Kruger, P., Mark, A.E., Scott, W.R.P., Tironi, I.G., (1996) Biomolecular Simulations: The GROMOS96 Manual and User Guide
VdF Hochschulverlag ETHZ: Zurich
Hess, B., Bekker, H., Berendsen, H.J.C., Fraaije, J.G.E.M., (1997) J Comput Chem, 18, pp. 1463-1472
Darden, T., York, D., Pedersen, L., (1993) J Chem Phys, 98, pp. 10089-10092
Berendsen, H.J.C., Vanderspoel, D., Vandrunen, R., (1995) Comp Phys Commun, 91, pp. 43-56
Gabb, H.A., Jackson, R.M., Sternberg, M.J., (1997) J Mol Biol, 272, pp. 106-120
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Structural Investigations on the Nodal-Cripto Binding: A Theoretical and Experimental Approach
Nodal, a member of the transforming growth factor-beta superfamily, is a potent embryonic morphogen also implicated in tumor progression. Up to date structural information on the interaction of Nodal with its molecular partners are unknown. To deepen our understanding about mechanisms underlying both embryonic development and Nodal/Cripto-dependent tumor progression, we present here a molecular model of activin receptor-like kinase 4/Cripto/Nodal complex built by homology modeling as well as docking tests aimed at identifying potential binding epitopes. Starting from this model, we have predicted a large interaction surface on Nodal, which encompasses residues 43-69 and includes the prehelix loop and the H3 helix. This hypothesis has been subsequently assessed by surface plasmon resonance binding assays between the full-length Cripto and synthetic peptides reproducing the selected Nodal regions. In addition, the binding affinity between the full-length Nodal and Cripto proteins has been evaluated for the first time. (C) 2010 Wiley Periodicals, Inc. Biopolymers 93: 1011-1021, 2010.
Nodal, a member of the transforming growth factor-beta superfamily, is a potent embryonic morphogen also implicated in tumor progression. Up to date structural information on the interaction of Nodal with its molecular partners are unknown. To deepen our understanding about mechanisms underlying both embryonic development and Nodal/Cripto-dependent tumor progression, we present here a molecular model of activin receptor-like kinase 4/Cripto/Nodal complex built by homology modeling as well as docking tests aimed at identifying potential binding epitopes. Starting from this model, we have predicted a large interaction surface on Nodal, which encompasses residues 43-69 and includes the prehelix loop and the H3 helix. This hypothesis has been subsequently assessed by surface plasmon resonance binding assays between the full-length Cripto and synthetic peptides reproducing the selected Nodal regions. In addition, the binding affinity between the full-length Nodal and Cripto proteins has been evaluated for the first time. (C) 2010 Wiley Periodicals, Inc. Biopolymers 93: 1011-1021, 2010.
Structural Investigations on the Nodal-Cripto Binding: A Theoretical and Experimental Approach
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Structural Investigations on the Nodal-Cripto Binding: A Theoretical and Experimental Approach
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De Simone G, Di Fiore A, Capasso C, Supuran CT
* The zinc coordination pattern in the eta-carbonic anhydrase from Plasmodium falciparum is different from all other carbonic anhydrase genetic families (470 views)
Bioorg Med Chem Lett (ISSN: 0960-894x), 2015 Apr 1; 25(7): 1385-1389.
Impact Factor: 2.486
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Calvanese L, Sandomenico A, Caporale A, Foca A, Foca G, D'Auria G, Falcigno L, Ruvo M
* Conformational features and binding affinities to Cripto, ALK7 and ALK4 of Nodal synthetic fragments (496 views)
J Pept Sci (ISSN: 1075-2617, 1099-1387, 1075-2617linking), 2015 Jan 15; 21(4): 283-293.
Impact Factor: 1.951
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Bellia F, GrassoG
* The role of copper(II) and zinc(II) in the degradation of human and murine IAPP by insulin-degrading enzyme (505 views)
J Mass Spectrom (ISSN: 1076-5174, 1096-9888), 2014; 49(4): 274-279.
Impact Factor: 2.379
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Turi I, DSanna D, Garribba E, Pappalardo G, Sóvágó I
* The effect of non-coordinating side chains on the metal binding affinities of peptides of histidine (425 views)
Polyhedron (ISSN: 0277-5387), 2013 Oct 7; 62: 7-17.
Impact Factor: 2.047
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Grasso G, Spoto G
* Plasmonics for the study of metal ion-protein interactions (414 views)
Anal Bioanal Chem (ISSN: 1618-2642), 2013 Feb; 405(6): 1833-1843.
Impact Factor: 3.578
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Alfieri A, Pasanisi F, Salzano S, Esposito L, Martone D, Tafuri D, Daniele A, Contaldo F, Sacchetti L, Zagari A, Buono P
* Functional analysis of melanocortin-4-receptor mutants identified in severely obese subjects living in Southern Italy (395 views)
Gene (ISSN: 0378-1119), 2010 Jun 1; 457(1-2): 35-41.
Impact Factor: 2.266
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Francalanci F, Avolio M, De Luca E, Longo DL, Menchise V, Guazzi P, Sgro F, Marino M, Goitre L, Balzac F, Trabalzini L, Retta SF
* Structural and functional differences between KRIT1A and KRIT1B isoforms: A framework for understanding CCM pathogenesis (493 views)
Exp Cell Res (ISSN: 0014-4827), 2009 Jan 15; 315(2): 285-303.
Impact Factor: 3.589
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Palmieri G, Catara G, Saviano M, Langella E, Gogliettino M, Rossi M
* First archaeal PEPB-serine protease inhibitor from sulfolobus solfataricus with noncanonical amino acid sequence in the reactive-site loop (396 views)
J Proteome Res (ISSN: 1535-3893), 2009 Jan; 8(1): 327-334.
Impact Factor: 5.132
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Licciardello MP, D'Agata R, Grasso G, Simone S, Spoto G
* Atmospheric Pressure Laser Desorption Mass Spectrometry based methods for the study of traditional painting materials (237 views)
Lasers Conserv Artworks Proc Int Conf Lacona Vii (ISSN: 9780-4154), 2008; N/D: 67-72.
Impact Factor: 0
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Ragno R, Simeoni S, Castellano S, Vicidomini C, Mai A, Caroli A, Tramontano A, Bonaccini C, Trojer P, Bauer I, Brosch G, Sbardella G
* Small molecule inhibitors of histone arginine methyltransferases: Homology modeling, molecular docking, binding mode analysis, and biological evaluations (752 views)
J Med Chem (ISSN: 0022-2623, 1520-4804, 0022-2623print), 2007 Mar 22; 50(6): 1241-1253.
Impact Factor: 4.895
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* The zinc coordination pattern in the eta-carbonic anhydrase from Plasmodium falciparum is different from all other carbonic anhydrase genetic families (470 views)
Bioorg Med Chem Lett (ISSN: 0960-894x), 2015 Apr 1; 25(7): 1385-1389.
Impact Factor: 2.486
View Export to BibTeX Export to EndNote
Calvanese L, Sandomenico A, Caporale A, Foca A, Foca G, D'Auria G, Falcigno L, Ruvo M
* Conformational features and binding affinities to Cripto, ALK7 and ALK4 of Nodal synthetic fragments (496 views)
J Pept Sci (ISSN: 1075-2617, 1099-1387, 1075-2617linking), 2015 Jan 15; 21(4): 283-293.
Impact Factor: 1.951
View Export to BibTeX Export to EndNote
Bellia F, GrassoG
* The role of copper(II) and zinc(II) in the degradation of human and murine IAPP by insulin-degrading enzyme (505 views)
J Mass Spectrom (ISSN: 1076-5174, 1096-9888), 2014; 49(4): 274-279.
Impact Factor: 2.379
View Export to BibTeX Export to EndNote
Turi I, DSanna D, Garribba E, Pappalardo G, Sóvágó I
* The effect of non-coordinating side chains on the metal binding affinities of peptides of histidine (425 views)
Polyhedron (ISSN: 0277-5387), 2013 Oct 7; 62: 7-17.
Impact Factor: 2.047
View Export to BibTeX Export to EndNote
Grasso G, Spoto G
* Plasmonics for the study of metal ion-protein interactions (414 views)
Anal Bioanal Chem (ISSN: 1618-2642), 2013 Feb; 405(6): 1833-1843.
Impact Factor: 3.578
View Export to BibTeX Export to EndNote
Alfieri A, Pasanisi F, Salzano S, Esposito L, Martone D, Tafuri D, Daniele A, Contaldo F, Sacchetti L, Zagari A, Buono P
* Functional analysis of melanocortin-4-receptor mutants identified in severely obese subjects living in Southern Italy (395 views)
Gene (ISSN: 0378-1119), 2010 Jun 1; 457(1-2): 35-41.
Impact Factor: 2.266
View Export to BibTeX Export to EndNote
Francalanci F, Avolio M, De Luca E, Longo DL, Menchise V, Guazzi P, Sgro F, Marino M, Goitre L, Balzac F, Trabalzini L, Retta SF
* Structural and functional differences between KRIT1A and KRIT1B isoforms: A framework for understanding CCM pathogenesis (493 views)
Exp Cell Res (ISSN: 0014-4827), 2009 Jan 15; 315(2): 285-303.
Impact Factor: 3.589
View Export to BibTeX Export to EndNote
Palmieri G, Catara G, Saviano M, Langella E, Gogliettino M, Rossi M
* First archaeal PEPB-serine protease inhibitor from sulfolobus solfataricus with noncanonical amino acid sequence in the reactive-site loop (396 views)
J Proteome Res (ISSN: 1535-3893), 2009 Jan; 8(1): 327-334.
Impact Factor: 5.132
View Export to BibTeX Export to EndNote
Licciardello MP, D'Agata R, Grasso G, Simone S, Spoto G
* Atmospheric Pressure Laser Desorption Mass Spectrometry based methods for the study of traditional painting materials (237 views)
Lasers Conserv Artworks Proc Int Conf Lacona Vii (ISSN: 9780-4154), 2008; N/D: 67-72.
Impact Factor: 0
View Export to BibTeX Export to EndNote
Ragno R, Simeoni S, Castellano S, Vicidomini C, Mai A, Caroli A, Tramontano A, Bonaccini C, Trojer P, Bauer I, Brosch G, Sbardella G
* Small molecule inhibitors of histone arginine methyltransferases: Homology modeling, molecular docking, binding mode analysis, and biological evaluations (752 views)
J Med Chem (ISSN: 0022-2623, 1520-4804, 0022-2623print), 2007 Mar 22; 50(6): 1241-1253.
Impact Factor: 4.895
View Export to BibTeX Export to EndNote
10 Records (10 excluding Abstracts).
Total impact factor: 28.323 (28.323 excluding Abstracts).
Total 5 year impact factor: 29.207 (29.207 excluding Abstracts).
Total impact factor: 28.323 (28.323 excluding Abstracts).
Total 5 year impact factor: 29.207 (29.207 excluding Abstracts).
562 views. Last view on Sunday 19 March 2023, 6:28:27
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