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Recent publications | Workpackage 1 | Crystallisation and X-ray Structure Determination of Natural and Miniaturised Proteins |
Research line 1
Group leader: Prof. Lucio Randaccio
W. F. DeGrado, L. Di Costanzo, S. Geremia, A. Lombardi, V. Pavone, L. Randaccio
Sliding helix and change of coordination geometry in a model di-Mn(II) protein.
(2003) Angew. Chem., Int. Ed. Engl., 42, 417–420
L. Di Costanzo, S. Geremia, L. Randaccio, T. Ichino, R. Yanagihara, T. Yamada, D. Maresco, A. Lombardi and V. Pavone
Conformational and coordination properties of a peptide containing the novel a,a–bis(2–pyridyl)glycine amino acid.
(2003) J. Chem. Soc. Dalton Trans., 787–792
G. Garau, S. Geremia, L.G. Marzilli, G. Nardin, L. Randaccio, M. Sandri and G. Tauzher
Crystal chemistry and binding of NO2, SCN, and SeCN to Co in cobalamins.
(2003) Acta Crystallogr., B59, 51–59
L. Pirondini, A. G. Stendardo, S. Geremia, M. Campagnolo, P. Samorì, J. P. Rabe, R. Fokkens and E. Dal Canale
Dynamic Materials through Metal-Directed and Solvent-Driven Self-Assembly of Cavitands.
(2003) Angew. Chem. Int. Ed., 42, 1384–1387
S. Geremia, L. Di Costanzo, L. Randaccio, A. Lombardi, V. Pavone, M. Campagnolo
Structure of a miniaturised hemoprotein by using the MAD technique on the Cobalt-edge.
(2002) Acta Crystallogr., A58, C277
L. Di Costanzo, S. Geremia, L. Randaccio, W. F. DeGrado, A. Lombardi and V. Pavone
Phasing by maximal-minimal non-isomorphic sub-super-groups relationship in four-helix bundle designed protein.
(2002) Acta Crystallogr., A58, C294
S. Geremia, L. Di Costanzo, A. Lombardi, V. Pavone and L. Randaccio
X-ray study of artificial metalloproteins with 4-helix bundle motif.
(2001) J. Inorg. Biochem. 86, 232-232.
L. Di Costanzo, H. Wade, S. Geremia, L. Randaccio, W. F. DeGrado, V. Pavone and A. Lombardi
Toward the de Novo Design of a Catalytically Active Helix-Bundle: a Substrate Accessible Carboxylate-bridged Dinuclear Metal Center.
(2001) J. Am. Chem. Soc. 57, 12749-12749.
A. Lombardi, C. Summa, S. Geremia, L. Randaccio, V. Pavone, and W.F. Degrado
Retrostructural analysis of metalloproteins. Application to the design of a minimal model for diiron proteins.
(2000) Proc. Natl. Acad. Sci. (USA) 97, 6298-6298.
L. Randaccio, M. Furlan, S. Geremia, M. Šlouf, I. Srnova, and D. Toffoli
Similarities and differences between cobalamines and cobaloximes. Accurate structural determination of methylcobalamin and of LiCl and KCl containing cyanocobalamin by sychtrotron radiation.
(2000) Inorg. Chem. 39, 3403-3403.
Research line 2
Group leader: Prof. Silvano Geremia
L. Di Costanzo, F. Forneris, S. Geremia and L. Randaccio
Phasing protein structures using group-subgroup relation
(2003) Acta Crystallogr. D in press.
S. Geremia, M. Campagnolo, R. Schinzel, L. N. Johnson
Enzymatic catalysis in crystals of E.coli Maltodextrin Phosphorylas
(2002) J. Mol. Biol. 322, 413-423.
G. Garau, S. Geremia and L. Randaccio
Relationship between hydrogen-bonding network of the "conservative" water molecule and reduction potential in c-type cytochromes.
(2002) FEBS Lett. 516, 285-286.
S. Geremia, G. Garau, L. Vaccari, R. Sgarra, M. S. Viezzoli, M. Calligaris and L. Randaccio
Cleavage of the iron-methionine bond in c-type cytochromes. Crystal structure of oxidized and reduced cytochrome c2 from Rhodopseudomonas palustris and its ammonia complex.
(2002) Protein Sci. 11, 6-17.
G. Garau, S. V. Fedosov, T. Petersen, S. Geremia and L. Randaccio
Crystallization and preliminary X-ray diffraction analysis of human Transcobalamin.
(2001) Acta Crystallogr. D57, 1890-1892.
G. Garau, S. Geremia, L. Randaccio, L. Vaccari and M. S. Viezzoli
Crystallization and preliminary X-ray analysis of two pH-dependent forms of cytochrome c2 from Rhodopseudomonas palustris.
(2000) Acta Cryst. D56, 1699-1702.
K.A. Watson, C. McCleverty, S. Geremia, S. Cottaz, H. Driguez, and L.N. Johnson
Phosphorylase recognition and phosphorolysis of its oligosaccharide substrate: Answers to a long outstanding question.
(1999) EMBO J. 18, 4619-4619.
| Workpackage 2 | Molecular modelling of enzymes, and computer-aided design and synthesis of inhibitors |
Research line 3
Group leader: Prof. Domenico Romeo
F. Benedetti, F. Berti, G. Garau, I. Martinuzzi, S. Norbedo.
Val-Ala Dipeptide Isosteres via Hydrocyanation of a’-Amino-a,b-Unsaturated Ketones. Control of Stereoselectivity by the N-Protecting Group.
(2003) Eur. J. Org. Chem. 1973.
R. Aggarwal, F. Benedetti, F. Berti, S. Buchini, A. Colombatti, F. Dinon, V. Galasso, S. Norbedo
A Catalytic Antibody Programmed for Torsional Activation of Amide Bond Hydrolysis.
(2003) Chem. Eur. J. 3132
D. Skrbec and D. Romeo.
Inhibition of Candida albicans secreted aspartic protease by a novel series of peptidomimetics, also active on HIV-1 protease.
(2002) Biochem. Biophys. Res. Commun. 297, 1350-1353.
A. Tossi, I. Bonin, N. Antcheva, S. Norbedo, F. Benedetti, S. Miertus, A. C. Nair, T. Maliar, F. Dal Bello, G. Palù, and D. Romeo.
Aspartic protease inhibitors: an integrated approach for the design and synthesis of diaminodiol based peptidomimetics.
(2000) Eur. J. Biochem. 267, 1715-1722.
A.C. Nair, S. Miertus, A. Tossi, and D. Romeo
A computational study of the resistance of HIV-1 aspartic protease to the inhibitors ABT-538 and VX-478 and design of new analogs. Biochem. Biophys.
(1998) Res. Commun. 242, 545-551.
V. Frecer, S. Miertus, A. Tossi, and D. Romeo
Rational design of inhibitors for drug-resistant HIV-1 aspartic protease mutants.
(1998) Drug Design Discov. 15, 211-231.
Research line 4
Group leader: Prof. Paolo Linda
Braiuca, P., Ebert, C., Fischer, L., Gardossi, L., Linda, P.
Homology model of penicillin acylase from Alcaligenes faecalis and in silico evaluation of its selectivity (2003) ChemBiochem, in press.
Basso, A., Braiuca, P., Ebert, C., Gardossi, L., Linda, P., Benedetti, F.
GRID / tetrahedral intermediate computational approach to the study of selectivity of penicillin G acylase in amide bond synthesis.
(2002) Biochim. Biophys. Acta, Protein and Proteomics, 1601, 85-92.
Basso, A., Braiuca, P., Clementi, S., Ebert, C., Gardossi, L., Linda, P.
Computational analysis of the aminic subsite of PGA explains the influence of amine structure on enantioselectivity
(2002) J. Mol. Catal. B: Enzymatic , 1920,423-430.
Biffi, S., De Martin, L., Ebert, C., Gardossi, L., Linda, P.
Glutaryl-7-ACA acylase catalyses the synthesis of amide bond in heterogeneous substrate mixtures
(2002) J. Mol. Catal. B: Enzymatic 19-20, 135-141.
Basso, A., De Martin, L., Ebert, C., Gardossi, L., Linda, P.
Selectivity of PGA in Organic Solvent towards Phenylacetic Acid derivatives in amide bond synthesis.
(2001) J. Mol. Catal. B 16, 73-80.
De Martin, L., Ebert, C., Gardossi, L., Linda, P.
High isolated yields in thermolysis-catalysed synthesis of Z-L-aspartyl-L-phenylalanine methyl ester in toluene at controlled water activity.
(2001) Tetrahedron Lett. 42, 3395-3397.
Basso, A., De Martin, L., Ebert, C., Gardossi, L., Linda, P., Zlatev, V.
Activity of covalently immobilised PGA in water miscible solvents at controlled aw.
(2001) J. Mol. Catal. B 11 (4-6), 851-855.
Benedetti, F., Berti, F., Colombatti, A., Flego, M., Gardossi, L., Linda, P., Peressini, S.
522C2, a Highly Efficient Antibody for the Hydrolysis (Deprotection) of Tyrosine Benzoate.
(2001) Chem. Commun. 715-715.
Basso, A., Braiuca, P., De Martin, L., Ebert, C., Gardossi, L., Linda, P.
D-Phenylglycine and D-4-Hydroxyphenylglycine Methyl Esters via Penicillin G Acylase Catalysed Resolution in Organic Solvents.
(2000) Tetrahedron: Asymmetry 11, 1789-1796.
Basso, A., De Martin, L., Ebert, C., Gardossi, L., Linda, P.
High isolated yields in thermodynamically controlled peptide synthesis in toluene catalysed by thermolysin adsorbed on Celite R-640.
(2000) J. Chem. Soc., Chem. Commun. 467-468.
Research line 5
Group leader: Prof. Gianni Del Sal
Gostissa M, Hofman T. Will H. and Del Sal G.
Regulation of p53 functions:let’smeet at the nuclear bodies.
(2003) Current Opinion Cell Biology , in press.
Dahle O, Andersen TO, Nordgard O, Matre V, Del Sal G, Gabrielsen OS.
Transactivation properties of c-Myb are critically dependent on two SUMO-1 acceptor sites that are conjugated in a PIASy enhanced manner.”
(2003) Eur J Biochem. 270, 1338.
Zacchi P, Gostissa M, Uchida T, Salvagno C, Avolio F, Volinia S, Ronai Z, Blandino G, Schneider C, Del Sal G.
The prolyl isomerase Pin1 reveals a mechanism to control p53 functions after genotoxic insults.
(2002) Nature., 419, 853
G. D'Orazi, B. Cecchinelli, T. Bruno, I. Manni, Y. Higashimoto, S. Saito, M. Gostissa, S. Coen, A. Marchetti, G. Del Sal, G. Piaggio, M. Fanciulli, E. Appella, S. Soddu
Homeodomain-interacting protein kinase-2 phosphorylates p53 at Ser 46 and mediates apoptosis.
(2002) Nature Cell Biology. 4, 11 - 19.
S. Strano, G. Fontemaggi, A. Costanzo, M.G. Rizzo, O. Monti, A. Baccarini, G. Del Sal, M. Levrero, A. Sacchi, M. Oren and G. Blandino.
Physical Interaction with hyman tumor-derived p53 mutants inhibits p63 activities.
(2002) J. Biol. Chem., 277,18817
R. Benetti, G. Del Sal, G. Paroni, C. Brancolini, and C. Schneider.
The death substrate Gas2 binds m-calpain and increases susceptibility to p53 dependent apoptosis.
(2001) EMBO J. 20, 2702-2714.
V. Fogal, M., Gostissa, P. Sandy, P. Zacchi, K. Jensen, T. Sternsdorf, P. P. Pandolfi, H. Will, C. Schneider C., and G. Del Sal.
Regulation of p53 in nuclear bodies by a specific PML isoform.
(2000) EMBO J. 19, 6185.
P. Sandy, M. Gostissa, V. Fogal, L. Decco, K. Szalay, B. Rooney, C. Schneider, and G. Del Sal.
P53 is involved in the p120E4F-mediated growth arrest.
(2000) Oncogene 19, 188-188.
M. Gostissa, A. Hengstermann, V. Fogal, P. Sandy, S. E. Schwarz, M. Scheffner, and G. Del Sal.
Activation of p53 by conjugation to the ubiquitin-like protein SUMO-1.
(1999) EMBO J. 18, 6462-6471.
Research line 6
Group leader: Prof. Giorgio Manzini
D Ambrosio C., Talamo F., Vitale R.M., Amodeo P., Tell G., Ferrara L. and Scaloni A.
Probing the Dimeric Structure of Porcine Acylase I by Mass Spectometric and Modeling
(2003) Procedures. Biochemistry, in press.
Paron I., Scaloni, A., Pines, A., Bachi, A., Liu, F.T., Puppin, C., Pandolfi, M., Ledda, L., Di Loreto, C., Damante, G. and Tell, G.
Nuclear localization of Galectin-3 in transformed thyroid cells: a role in transcriptional regulation.
(2003) Biochem. Biophys. Res. Commun. 302, 545.
D'Elia AV, Tell G, Russo D, Arturi F, Puglisi F, Manfioletti G, Gattei V, Mack DL, Cataldi P, Filetti S, Di Loreto C, Damante G.
Expression and localization of the homeodomain-containing protein HEX in human thyroid tumors.
(2002) J Clin Endocrinol Metab. 87, 1376.
Tell, G., Pines, A., Paron, I., D'Elia, A., Bisca, A., Kelley, M. R., Manzini, G. and Damante, G.
Ref-1 regulates the activity of Thyroid Transcription Factor 1 by controlling the redox state of the N transcriptional activation domain.
(2002) J. Biol. Chem. 277, 14564-14574.
Tell, G., Pines, A., Pandolfi, M., D'Elia, A. V., Donnini, D., Lonigro, R., Russo, D., Di Loreto, C. and Damante, G.
APE/Ref-1 is controlled by both redox and cAMP-dependent mechanisms in rat thyroid cells.
(2002) Hormone and Metabolic Res. 34(6), 303-310.
A. Bandiera, G. Tell, E. Marsich, A. Scaloni, G. Pocsfalvi, A. Akindahunsi, L. Cesaratto, G. Manzini
Cytosine-block telomeric type DNA-binding activity of hnRNP proteins from human cell lines.
(2002) Archives of Biochemistry and Biophysics, 409, 305
Frossi B, Tell G, Spessotto P, Colombatti A, Vitale G, Pucillo C.
H2O2 induces translocation of APE/Ref-1 to mitochondria in the Raji B-cell line.
(2002) J Cell Physiol. 193,180-186.
Russo D, Celano M, Bulotta S, Bruno R, Arturi F, Giannasio P, Filetti S, Damante G, Tell G.
APE/Ref-1 is increased in nuclear fractions of human thyroid hyperfunctioning nodules.
(2002) Mol Cell Endocrinol. 194, 71.
D'Elia AV, Tell G, Russo D, Arturi F, Puglisi F, Manfioletti G, Gattei V, Mack DL, Cataldi P, Filetti S, Di Loreto C, Damante G.
Expression and localization of the homeodomain-containing protein HEX in human thyroid tumors.
J Clin Endocrinol Metab. 2002 Mar;87(3):1376-83.
Puglisi F, Barbone F, Tell G, Aprile G, Pertoldi B, Raiti C, Kelley MR, Damante G, Sobrero A, Beltrami CA, Di Loreto C.
Prognostic role of Ape/Ref-1 subcellular expression in stage I-III breast carcinomas.
Oncol Rep. 2002 Jan-Feb;9(1):11-7.
Marsich, E., Bandiera, A., Tell, G., Scaloni, A. and Manzini, G.
A chicken hnRNP of the A/B family recognizes the single-stranded d(CCCTAA)(n) telomeric repeated motif.
(2001) Eur J Biochem. 268, 139-148.
Tell, G., Zecca, A., Cimarosti, D., Colombatti, A., Kelley, M., Damante, G., and Pucillo, C.
An "environment to nucleus" signaling system operates in B lymphocytes: redox status of Ref-1 modulates BSAP/Pax-5 activation.
(2000) Nucleic Acids Research 28, 1099-105.
Scaloni, A., Monti, M., Acquaviva, R., Tell, G., Damante, G., Formisano, S. and Pucci, P.
Topology of the thyroid transcription factor 1 homeodomain-DNA complex.
(1999) Biochemistry 38, 64-72.
Pellizzari, L., Tell, G. and Damante, G.
Co-operation between the PAI and RED subdomains of Pax-8 in the interaction with thyroglobulin promoter.
(1999) Biochem J. 337, 253-253.
Perrone, L., Tell, G. and Di Lauro, R.
Calreticulin enhances the transcriptional activity of thyroid transcription factor-1 by binding to its homeodomain".
(1999) J. Biol. Chem. 274, 4640-4640.
E. Marsich, L. E. Xodo, and G. Manzini.
Widespread presence in mammals and high binding specificity of a nuclear protein that recognises the single-stranded telomeric motif (CCCTAA)n.
(1998) Eur. J. Biochem. 258, 93-93.
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