Monika Fuxreiter

Contact information

Office address: 
Department of Biochemistry and Molecular Biology,

Group homepage: http://protdyn.med.unideb.hu

Previous appointments

Postdoctoral appointments

Awards 

Scientific interests

protein disorder
fuzzy complexes
enzyme evolution

Book

Fuzziness: structural disorder in protein complexes

(Springer/Landes)

Lectures

Dynamism in protein evolution

Fuzzy complexes: ambiguity in protein - protein and protein-DNA interactions

Mechanisms and polymorphism in recognition by intrinsically unstructured proteins

Publications

2014

[53] van der Lee R, Lang B, Kruse K, Gsponer J, Sánchez de Groot N., Huynen MA, Matouschek A, Fuxreiter Mand Babu MM (2014) Intrinsically disordered segments affect protein half-life in the cell and during evolution. Cell Reports 8, 1-12

[52] van der Lee R, Buljan M, Lang B, Weatheritt RJ, Daughdrill GW, Dunker AK, Fuxreiter M, Gough J, Gsponer J, Jones DT, Kim PM, Kriwacki RW, Oldfield CJ, Pappu RV, Tompa P, Uversky VN, Wright PE, Babu MM. (2014) Classification of Intrinsically Disordered Regions and Proteins. Chem Rev. 114, 6589-6631

[51] Fuxreiter M, Mones L. (2014) The role of reorganization energy in rational enzyme design. Curr Opin Chem Biol. 21, 34-41

[50] Fuxreiter M, Tóth-Petróczy A, Kraut DA, Matouschek AT, Lim RY, Xue B, Kurgan L, Uversky VN. (2014) Disordered proteinaceous machines Chem Rev. 114, 6806-6843

2013

[49] Kanchan K, Ergülen E, Király R, Simon Vecsei Z, Fuxreiter M, Fésüs L. (2013) Identification of specific one amino acid change in recombinant human transglutaminase 2 in regulating its activity and calcium sensitivity. Biochem J. 455, 261-72.

[48] Buljan M, Chalancon G, Dunker AK, Bateman A, Balaji S, Fuxreiter M, Babu MM. (2013) Alternative splicing of intrinsically disordered regions and rewiring of protein interactions Curr Opin Struct Biol. 23, 443-50.

[47] Dunker A.K., Babu M., Barbar E., Blackledge M., Bondos S.E., Dosztányi Z., Dyson H.J., Forman-Kay J., Fuxreiter M., Gsponer J., Han K.-H., Jones D.T., Longhi S., Metallo S.J., Nishikawa K., Nussinov R., Obradovic Z., Pappu R., Rost B., Selenko P., Subramaniam V., Sussman J.L., Tompa P., Uversky V.N. (2013) What’s in a name? Why these proteins are intrinsically disordered. Intrinsically Disordered Proteins. 1 (1) e24157

[46] Labas A, Szabo E, Mones L, Fuxreiter M. (2013) Optimization of reorganization energy drives evolution of the designed Kemp eliminase KE07. Biochim Biophys Acta. 1834, 908-917.

2012

[45] M. Buljan, G. Chalancon, S. Eustermann, G. Wagner, M. Fuxreiter, A. Bateman, M.M. Babu (2012) Tissue-specific splicing of disordered segments that embed binding motifs rewires protein interaction networks. Mol Cell 46, 871-883.

[44] R. Pancsa, M. Fuxreiter* (2012) Interactions via intrinsically disordered regions: what kind of motifs? IUBMB Life 64, 513-520.

[43] N Bernstein, C Várnai, I Solt, SA Winfield, MC Payne, I Simon, M Fuxreiter, G. Csányi (2012) QM/MM simulation of liquid water with an adaptive quantum region Phys. Chem. Chem. Phys. 14, 646-656.

[42] M Fuxreiter (2012) Fuzziness: linking regulation to protein dynamics. Mol Biosystems 8, 168-177.

2011

[41] M.Fuxreiter*, I. Simon, S. Bondos (2011) Dynamic protein-DNA recognition: beyond what can be seen. Trends in Biochem Sci 36, 415-423.

[40] ML Di Paolo, M Lunelli, M Fuxreiter, A Rigo, I Simon, M Scarpa (2011) Active site involvement in monoamine or diamine oxidation catalyzed by pea seedling amine oxidase. FEBS J 278, 1232-43.

2009

[39] A Toth-Petroczy, I Simon M Fuxreiter, Y Levy (2009) Disordered tails of homeodomains facilitate DNA recognition by providing a trade-off between folding and specific binding. J Am Chem Soc 131, 15084-85.

[38] V Pingoud, W Wende, P Friedhoff, M Reuter, J Alves, A Jeltsch, L Mones, M Fuxreiter, A. Pingoud (2009) On the divalent ion dependence of DNA cleavage by restriction endonucleases of the EcoRI family. J Mol Biol 393, 140-60.

[37] L Mones, P Kulhanek, I Simon, A Laio and M Fuxreiter* (2009) Egap as a universal coordinate for simulating chemical reactions. J Phys Chem B 113, 7867-73.

[36] I Solt, P Kulhanek, I Simon, S Winfield, MC Payne, G Csanyi and M Fuxreiter* (2009) Evaluating Boundary dependent force errors in QM/MM simulations. J Phys Chem B 113, 5728-35.

[35] P Tompa, M Fuxreiter, CJ Oldfield, I Simon, AK Dunker, VN Uversky (2009) Close encounters of the thrid kind: disordered domains and interactions of proteins. Bioessays 31, 328-35.

[34] M Fuxreiter and P Tompa (2009) Fuzzy interactome: the limitations of models in molecular biology, Trends in Biochem Sci, 34, 3

2008

[33] Á Tóth-Petróczy, CJ Oldfield, I Simon, Y Takagi, AK Dunker, VN Uversky and M. Fuxreiter* (2008) Malleable machines take shape in transcription regulation: the mediator complex PloS Comp Biol 4, e1000243

[32] M Fuxreiter*, P Tompa, I Simon, VN Uversky, JC Hansen, F Asturias (2008) Malleable machines take shape in eukaryotic transcription regulation. Nat Chem Biol 4, 728-737

[31] Á Tóth-Petróczy, B. Mészáros, I Simon, AK Dunker, VN Uversky and M. Fuxreiter* (2008) Assessing conservation of disordered regions in proteins. The Open Proteomics Journal 1, 46-53.

[30] P. Tompa and M Fuxreiter(2008)Fuzzy complexes: polymorphism and structural disorder in protein–protein interactions. Trends in Biochem. Sci 33, 2-8

2007

[29] L. Mones, P. Kulhanek, J. Florian, I Simon and M. Fuxreiter* (2007) Probing the two-metal ion mechanism in the restriction endonuclease BamHI Biochemistry 46, 14514-14523

[28] I. Solt, I. Simon, A.G. Császár, M. Fuxreiter* (2007) Electrostatic vs. non-electrostatic effects in DNA sequence discrimination by divalent metal ions Mg²⁺ and Mn²⁺ . J. Phys Chem B 111, 6272-6279.

[27] M. Fuxreiter, P. Tompa, I. Simon (2007) Local structural disorder imparts plasticity on linear motifs. Bioinformatics 23, 950-956.

[26] Chuluunbaatar, T.Ivanenko-Johnston, M. Fuxreiter*, R. Meleshko, T. Rasko, I. Simon, J. Heitman and A. Kiss (2007) An EcoRI-RsrI chimeric restriction endonuclease retains parental sequence specificity. BBA Proteins & Proteomics 1174, 583-594

[25]V. Németh-Pongrácz, O. Barabás, M. Fuxreiter, I. Simon, I. Pichová, M. Rumlová, D. Svergun, M. Petoukhov, V. Harmat, É. Klement, É. Hunyadi-Gulyás, K. F. Medzihradszky, E. Kónya and B. G. Vértessy (2007) Flexible Segments Modulate Co-folding of DUTPase and Nucleocapsid Proteins. Nucleic Acids Res.35, 495-505.

[24] L.Mones, I.Simon, M. Fuxreiter* (2007) Metal sites at the active site of BamHI can conform to a one-ion mechanism. Biol. Chem. 388 (1) 73-79

2006

[23] I.Solt, Cs. Magyar, I.Simon, P.Tompa, M. Fuxreiter* (2006) Phosphorylation-induced transient intrinsic structure in the kinase-inducible domain of CREB facilitates its recognition by the KIX domain of CBP. Proteins 64, 749-757.

2005

[22] M. Fuxreiter*, M. Mezei, I. Simon, R. Osman (2005) Interfacial water as a “Hydration Fingerprint” in the noncognate complex of BamHI. Biophys. J. 89, 903-911.

[21] M. Fuxreiter, Cs. Magyar, T. Juhász , Z. Szeltner, L. Polgár, I. Simon (2005) The Dynamic Properties of the Structure of Prolyl Oligopeptidase. Implication for Catalysis. Proteins 60, 504-512.

[20] A. Pingoud, M. Fuxreiter, V. Pingoud, W. Wende (2005) Type II restriction endonucleases: structure and mechanism. Cellular and Molecular Life Sciences 62, 685-707.

2004

[19] M. Fuxreiter, I. Simon, P. Friedrich and P. Tompa (2004) Preformed structural elements feature in partner recognition by intrinsically unstructured proteins. J. Mol. Biol. 338,1015-1026.

[18] E. Tüdős, A. Fiser, A. Simon, Zs. Dosztányi, M. Fuxreiter, Cs. Magyar and I. Simon (2004) Non-covalent crosslinks in context with other structural and functional elements of proteins. J. Chem. Inf Comp. Sc., 44, 347-351.

2003

[17] M. Fuxreiter*, R. Osman, I Simon (2003) Computational Approaches to Restriction Endonucleases. J. Mol. Structure, 666-667, 469-479.

2002

[16] M. Fuxreiter, N. Luo, P. Jedlovszky, I. Simon and R. Osman (2002) Role of base flipping in specific recognition of damaged DNA by repair enzymes. J. Mol. Biol. 323,823-834.

[15] M. Fuxreiter and I. Simon (2002) Protein stability indicates divergent evolution of PD-(D/E)XK type II restriction endonucleases. Protein Sci. 11, 1978-1983.

[14] M. Fuxreiter and I. Simon (2002) Role of stabilization centers in 4 helix bundle proteins. Proteins 48, 320-326.

[13] E.L. Mehler, M. Fuxreiter, I. Simon, and B.E. Garcia-Moreno (2002) The role of hydrophobic microenvironments in modulating pKa shifts in proteins. Proteins 48, 283-292.

2001

[12] M. Fuxreiter and R. Osman (2001) Probing the general base catalysis in the first step of BamHI action by computer simulations. Biochemistry 40, 15017-15023.

[11] U. Das, S. Chen, M. Fuxreiter, A.A.Vaguine, J. Richelle, H.M. Berman and S.J. Wodak (2001) Checking nucleic acid crystal structures. Acta Cryst.D. 57, 813-828.

1994-2000

[10] R. Osman, M. Fuxreiter and N. Luo (2000) Specificity of damage recognition and catalysis of DNA repair.Computers & Chemistry 24, 331-339.

[9] M. Fuxreiter, A. Warshel and R. Osman (1999) Role of active site residues in the glycosylase step of T4 Endonuclease V. Computer simulation studies on ionization states. Biochemistry 38, 9577-9589.

[8] P. Martel, C.M. Soares, A.M. Baptista, M. Fuxreiter, G. Náray-Szabó, R.O. Louro, and M.A. Carrondo (1999) Comparative redox and pKa calculations on cytochromes c3 from Desulfovibrio species using continuum electrostatic methods. J. Biol. Inorg. Chem. 4, 73-86.

[7] M. Fuxreiter and A Warshel (1998) On the origin of the catalytic power of acetylcholinesterase. Computer simulation studies. J. Am. Chem. Soc. 120, 183-194.

[6] Zs. Böcskei, M. Fuxreiter, G. Náray-Szabó, E. Szabó and L. Polgár (1998) Crystallization and preliminary X-ray analysis of prolyl oligopeptidase. Acta Cryst. D. 54, 1414-1415.

[5] A. Szabó, M. Fuxreiter, A. Csámpai, K. Körmendy and J. Császár (1997) Substrate Specific Nucleophilic Amination of Nitro-substituted 4-(2-Hydroxyethyl- amino)phtalazin-1-(2H)-ones. Heterocyclic Communication 3, 555-562.

[4] M. Fuxreiter, Zs. Böcskei, A. Szeibert, E. Szabó, G. Dallman, G. Náray-Szabó and B. Asbóth (1997) The role of electrostatics at the catalytic metal binding site in xylose isomerase action. Ca2+inhibition and metal competence in double mutant D254E/D256E. Proteins 28, 183-193.

[3] I. Fernandez, J. Ubach, M. Fuxreiter, J.M. Andreu, D. Andreu, M. Pons (1996) Conformation and self association of a hybride peptide of cecropin-A and melittin with improved antibiotic activity. Chemistry 2, 838-846.

[2] M. Fuxreiter, Ö. Farkas and G. Náray-Szabó (1995) Molecular modelling of xylose isomerase catalysis. Protein Engineering 8 , 925-33

[1] M. Fuxreiter, A. Csámpai and J. Császár (1994) Formation of a strained triazapentalenoindene skeleton via the rearrangement of 2,3-dihydro-7-nitro-1H-imidazo{2,1-a]phtalazin-4-ium-6-olate effected by dichloroacetic anhydride. Heterocycles 38, 1453-1457.

Book

Monika Fuxreiter and Peter Tompa (Eds) Fuzziness: Structural disorder in protein complexes,

Landes Bioscience/Springer, Austin, NY 2011

Book chapters

[1] G. Náray-Szabó, M. Fuxreiter, A. Warshel: Electrostatic basis of enzyme catalysis. in Computational Approaches to Biochemical Reactivity (eds. G. Náray-Szabó, A. Warshel), Kluwer, Dordrecht, 1997, 237-293.

[2] B Asbóth, Zs. Böcskei, M. Fuxreiter, G. Náray-Szabó: The role of electrostatics at the catalytic metal binding site in xylose isomerase action.in NATO Advanced Research Workshop Series (eds. P. Comba and L. Banci), Kluwer, Dordrecht, 1997. 419-439.

[3] P. Tompa and M. Fuxreiter: Residual structure and binding functions of intrinsically disordered proteins. in Unfolded proteins: from denatured to intrinsically disordered (ed. Trevor. Creamer) Nova Science Publishers, 2008 New York, 213-235.

[4] Vladimir N. Uversky, Monika Fuxreiter, Christopher J. Oldfield, A. Keith Dunkerand Peter Tompa^: Intrinsically disordered proteins and their recognition functions (2009) in Computational protein-protein interactions (Eds Ruth Nussinov ad Gideon Scheiber) CRC press, 223-253.

[5] Monika Fuxreiter, Peter Tompa (2012) Fuzzy complexes: a more stochastic view of protein function in Fuzziness: Structural disorder in protein complexes (Eds Monika Fuxreiter and Peter Tompa) Springer, Adv. Exp Med Biol 725, 1-14