Peter Tompa

Summary

Affiliation: Vrije Universiteit Brussel
Country: Belgium

Publications

  1. pmc The Levinthal paradox of the interactome
    Peter Tompa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    Protein Sci 20:2074-9. 2011
  2. pmc Functional diversity and structural disorder in the human ubiquitination pathway
    Pallab Bhowmick
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    PLoS ONE 8:e65443. 2013
  3. pmc Structural disorder in eukaryotes
    Rita Pancsa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    PLoS ONE 7:e34687. 2012
  4. pmc Structural disorder provides increased adaptability for vesicle trafficking pathways
    Natalia Pietrosemoli
    National Centre for Biotechnology CNB CSIC, Madrid, Spain Department of Bioengineering, Rice University, Houston, Texas, USA
    PLoS Comput Biol 9:e1003144. 2013
  5. pmc Exon-phase symmetry and intrinsic structural disorder promote modular evolution in the human genome
    Eva Schad
    Institute of Enzymology, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Budapest 1113, Hungary
    Nucleic Acids Res 41:4409-22. 2013
  6. ncbi request reprint Predicting the Predictive Power of IDP Ensembles
    Peter Tompa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, 1050 Brussels, Belgium Institute of Enzymology, Research Centre for Natural Sciences of the Hungarian Academy of Sciences, 1113 Budapest, Hungary Electronic address
    Structure 22:177-8. 2014
  7. doi request reprint Intrinsically disordered proteins: a 10-year recap
    Peter Tompa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    Trends Biochem Sci 37:509-16. 2012
  8. ncbi request reprint Primary contact sites in intrinsically unstructured proteins: the case of calpastatin and microtubule-associated protein 2
    Veronika Csizmok
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Post Office Box 7, H 1518 Budapest, Hungary
    Biochemistry 44:3955-64. 2005
  9. pmc TOPDOM: database of domains and motifs with conservative location in transmembrane proteins
    Gabor E Tusnady
    Institue of Enzymology, BRC, Hungarian Academy of Sciences, H 1113 Karolina út 29, Budapest, Hungary
    Bioinformatics 24:1469-70. 2008
  10. doi request reprint Intrinsic structural disorder of DF31, a Drosophila protein of chromatin decondensation and remodeling activities
    Edit Szollosi
    Institute of Enzymology, Hungarian Academy of Sciences, Budapest, Hungary
    J Proteome Res 7:2291-9. 2008

Collaborators

Detail Information

Publications64

  1. pmc The Levinthal paradox of the interactome
    Peter Tompa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    Protein Sci 20:2074-9. 2011
    ..We surmise that this non-deterministic temporal continuum could not be reconstructed de novo under present conditions...
  2. pmc Functional diversity and structural disorder in the human ubiquitination pathway
    Pallab Bhowmick
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    PLoS ONE 8:e65443. 2013
    ....
  3. pmc Structural disorder in eukaryotes
    Rita Pancsa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    PLoS ONE 7:e34687. 2012
    ..We conclude that protists have been the evolutionary hot-bed of experimentation with structural disorder, in a period when structural disorder was actively invented and the major functional classes of disordered proteins established...
  4. pmc Structural disorder provides increased adaptability for vesicle trafficking pathways
    Natalia Pietrosemoli
    National Centre for Biotechnology CNB CSIC, Madrid, Spain Department of Bioengineering, Rice University, Houston, Texas, USA
    PLoS Comput Biol 9:e1003144. 2013
    ..Overall, our results confirm the general importance of structural disorder in vesicle trafficking and suggest major roles for this structural property in shaping the differences of evolutionary adaptability in the three routes...
  5. pmc Exon-phase symmetry and intrinsic structural disorder promote modular evolution in the human genome
    Eva Schad
    Institute of Enzymology, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Budapest 1113, Hungary
    Nucleic Acids Res 41:4409-22. 2013
    ..Our observations suggest that structural disorder has facilitated modular assembly of complex genes in evolution of the human genome...
  6. ncbi request reprint Predicting the Predictive Power of IDP Ensembles
    Peter Tompa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, 1050 Brussels, Belgium Institute of Enzymology, Research Centre for Natural Sciences of the Hungarian Academy of Sciences, 1113 Budapest, Hungary Electronic address
    Structure 22:177-8. 2014
    ..The article by Schwalbe and colleagues in this issue of Structure combines NMR and SAXS constraints to generate structural ensembles that unveil important functional and pathological features. ..
  7. doi request reprint Intrinsically disordered proteins: a 10-year recap
    Peter Tompa
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    Trends Biochem Sci 37:509-16. 2012
    ..I show that the evidence for the generality and importance of this phenomenon is now so insurmountable that it demands the inclusion of 'unstructural' biology into mainstream biology and biochemistry textbooks...
  8. ncbi request reprint Primary contact sites in intrinsically unstructured proteins: the case of calpastatin and microtubule-associated protein 2
    Veronika Csizmok
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Post Office Box 7, H 1518 Budapest, Hungary
    Biochemistry 44:3955-64. 2005
    ..To emphasize the possible importance of this structural trait, we propose that these motifs be called primary contact sites in IUPs...
  9. pmc TOPDOM: database of domains and motifs with conservative location in transmembrane proteins
    Gabor E Tusnady
    Institue of Enzymology, BRC, Hungarian Academy of Sciences, H 1113 Karolina út 29, Budapest, Hungary
    Bioinformatics 24:1469-70. 2008
    ..The information about the location of the collected domains and motifs can be incorporated into constrained topology prediction algorithms, like HMMTOP, increasing the prediction accuracy...
  10. doi request reprint Intrinsic structural disorder of DF31, a Drosophila protein of chromatin decondensation and remodeling activities
    Edit Szollosi
    Institute of Enzymology, Hungarian Academy of Sciences, Budapest, Hungary
    J Proteome Res 7:2291-9. 2008
    ..Finally, we also would like to point out the utility of our 2DE/MS technique for discoveringor, as a matter of fact, rediscoveringIDPs even from the complicated proteome of an advanced eukaryote...
  11. pmc The relationship between proteome size, structural disorder and organism complexity
    Eva Schad
    Institute of Enzymology, Research Center for Natural Sciences, Hungarian Academy of Sciences, Karolina ut 29, Budapest, Hungary
    Genome Biol 12:R120. 2011
    ..As intrinsic protein disorder has been linked with complex responses to environmental stimuli and communication between cells, an additional possibility is that structural disorder may effectively increase the complexity of species...
  12. pmc Multiple interactions of the 'transducer' govern its function in calpain activation by Ca2+
    Zoltan Bozoky
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, P O Box 7, 1518 Budapest, Hungary
    Biochem J 388:741-4. 2005
    ..The kinetic parameters of these mutant enzymes support a model featuring shrinkage of transducer as a contributor to structural changes involved in calpain activation...
  13. ncbi request reprint The role of structural disorder in the function of RNA and protein chaperones
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, 1518 Budapest, P O Box 7, Hungary
    FASEB J 18:1169-75. 2004
    ..7% and 15%, respectively. In keeping with these and other details, a novel "entropy transfer" model is presented to account for the mechanistic role of structural disorder in chaperone function...
  14. ncbi request reprint The calpain-system of Drosophila melanogaster: coming of age
    Peter Friedrich
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Bioessays 26:1088-96. 2004
    ..Equipped with all this information, we may now embark on the genetic modification of family members, interpreting mutant phenotypes in terms of the cell biology of calpains...
  15. ncbi request reprint Molecular principles of the interactions of disordered proteins
    Bálint Mészáros
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, 1518, Budapest, Hungary
    J Mol Biol 372:549-61. 2007
    ..e. they use their binding energy for folding. Overall, our findings provide a structural rationale to the prior suggestions that many IUPs are specialized for functions realized by protein-protein interactions...
  16. pmc Interfacial water at protein surfaces: wide-line NMR and DSC characterization of hydration in ubiquitin solutions
    Kalman Tompa
    Research Institute for Solid State Physics and Optics, Hungarian Academy of Sciences, Budapest, Hungary
    Biophys J 96:2789-98. 2009
    ..3 J x g(-1) x K(-1). It could be concluded that the protein ubiquitin and its hydrate layer behave as a highly interconnected single phase in a thermodynamic sense...
  17. doi request reprint Cold stability of intrinsically disordered proteins
    Agnes Tantos
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Karolina ut 29, H 1113 Budapest, Hungary
    FEBS Lett 583:465-9. 2009
    ..Our results affirm that in contrast with globular proteins IDPs are resistant to cold treatment. The theoretical and functional aspects of this observation are discussed...
  18. ncbi request reprint Local structural disorder imparts plasticity on linear motifs
    Monika Fuxreiter
    Institute of Enzymology, BRC, Hungarian Academy of Sciences, Budapest, Hungary
    Bioinformatics 23:950-6. 2007
    ..These results establish a connection between LMs and molecular recognition elements of intrinsically unstructured proteins (IUPs), which realize a non-conventional mode of partner binding mostly in regulatory functions...
  19. ncbi request reprint Disorder and sequence repeats in hub proteins and their implications for network evolution
    Zsuzsanna Dosztanyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, 1518 Budapest, Hungary
    J Proteome Res 5:2985-95. 2006
    ....
  20. ncbi request reprint The pairwise energy content estimated from amino acid composition discriminates between folded and intrinsically unstructured proteins
    Zsuzsanna Dosztanyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, 1518 Budapest, PO Box 7, Hungary
    J Mol Biol 347:827-39. 2005
    ..This application we term IUPred and compare its performance with three generally accepted predictors, PONDR VL3H, DISOPRED2 and GlobPlot on a database of disordered proteins...
  21. pmc DUK114, the Drosophila orthologue of bovine brain calpain activator protein, is a molecular chaperone
    Attila Farkas
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Biochem J 383:165-70. 2004
    ..Our work is the first experimental evidence that DUK114, and possibly other members of this family, are molecular chaperones...
  22. ncbi request reprint Contribution of distinct structural elements to activation of calpain by Ca2+ ions
    Anita Alexa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, P O Box 7, H 1518 Budapest, Hungary
    J Biol Chem 279:20118-26. 2004
    ..A schematic model of this "extended transducer" mechanism is presented...
  23. ncbi request reprint IUPred: web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content
    Zsuzsanna Dosztanyi
    Institute of Enzymology, BRC, Hungarian Academy of Sciences, PO Box 7, H 1518 Budapest, Hungary
    Bioinformatics 21:3433-4. 2005
    ..Optional to the prediction are built-in parameter sets optimized for predicting short or long disordered regions and structured domains...
  24. pmc Intrinsically disordered proteins display no preference for chaperone binding in vivo
    Hedi Hegyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    PLoS Comput Biol 4:e1000017. 2008
    ..In support of this conclusion, we show that IDPs that bind chaperones also tend to bind other proteins...
  25. ncbi request reprint Prevalent structural disorder in E. coli and S. cerevisiae proteomes
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    J Proteome Res 5:1996-2000. 2006
    ..Thus, protein disorder is a widespread and functionally important phenomenon, which needs to be characterized in full detail for understanding complex organisms at the molecular level...
  26. pmc Intrinsic structural disorder confers cellular viability on oncogenic fusion proteins
    Hedi Hegyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    PLoS Comput Biol 5:e1000552. 2009
    ..g. EWS-ATF). Our findings also suggest novel strategies of intervention against the ensuing neoplastic transformations...
  27. doi request reprint Close encounters of the third kind: disordered domains and the interactions of proteins
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Bioessays 31:328-35. 2009
    ..With these points, we argue that these long disordered regions should be recognized as a distinct class of biologically functional protein domains...
  28. doi request reprint Full backbone assignment and dynamics of the intrinsically disordered dehydrin ERD14
    Bianka Szalainé Ágoston
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Karolina ut 29, 1113, Budapest, Hungary
    Biomol NMR Assign 5:189-93. 2011
    ..These results suggest that ERD14 may have partially preformed elements for functional interaction with its partner(s) and set the stage for further detailed structural and functional studies of ERD14 both in vitro and in vivo...
  29. ncbi request reprint Prediction of protein disorder
    Zsuzsanna Dosztanyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Methods Mol Biol 426:103-15. 2008
    ..An emphasis is also given to a somewhat different approach, in which ordered/disordered regions are explicitly delineated to the end of making constructs amenable for structure determination even when disordered regions are present...
  30. ncbi request reprint From protein sequence to dynamics and disorder with DynaMine
    Elisa Cilia
    1 MLG, Departement d informatique, Universite Libre de Bruxelles, Boulevard du Triomphe, CP 212, 1050 Brussels, Belgium 2 Interuniversity Institute of Bioinformatics in Brussels, ULB VUB, La Plaine Campus, Triomflaan, BC building, 6th Floor, CP 263, 1050 Brussels, Belgium
    Nat Commun 4:2741. 2013
    ..DynaMine provides molecular biologists with an important new method that grasps the dynamical characteristics of any protein of interest, as we show here for human p53 and E1A from human adenovirus 5...
  31. doi request reprint Increased structural disorder of proteins encoded on human sex chromosomes
    Hedi Hegyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Mol Biosyst 8:229-36. 2012
    ....
  32. ncbi request reprint Fuzzy complexes: polymorphism and structural disorder in protein-protein interactions
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Trends Biochem Sci 33:2-8. 2008
    ..Given the crucial role of protein disorder in protein-protein interactions and in regulatory processes, we envision that fuzziness will become integral to understanding the interactome...
  33. pmc Structural disorder promotes assembly of protein complexes
    Hedi Hegyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    BMC Struct Biol 7:65. 2007
    ..The recent high-throughput analyses of protein-protein interactions and protein complexes in the cell generated data that enable to address this issue by bioinformatic means...
  34. doi request reprint Janus chaperones: assistance of both RNA- and protein-folding by ribosomal proteins
    Denes Kovacs
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    FEBS Lett 583:88-92. 2009
    ..These observations highlight possible novel aspects of the promiscuous functions of ribosomal proteins outside of the ribosome...
  35. pmc Chaperone activity of ERD10 and ERD14, two disordered stress-related plant proteins
    Denes Kovacs
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary H 1113
    Plant Physiol 147:381-90. 2008
    ..We suggest that these findings provide the rationale for the mechanism of how these proteins avert the adverse effects of dehydration stresses...
  36. ncbi request reprint Towards proteomic approaches for the identification of structural disorder
    Veronika Csizmok
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Curr Protein Pept Sci 8:173-9. 2007
    ..Advantages and drawbacks of the various approaches are outlined in anticipation of future inventions in the field that will hopefully elevate IUP research to the truly proteomic level...
  37. doi request reprint Power law distribution defines structural disorder as a structural element directly linked with function
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, PO Box 7, 1518 Budapest, Hungary
    J Mol Biol 403:346-50. 2010
    ..We interpret this finding by the direct functional involvement of disorder, which distinguishes it from secondary structural elements and endows it with tertiary structural attributes...
  38. doi request reprint Structural disorder and local order of hNopp140
    Agnes Tantos
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Biochim Biophys Acta 1834:342-50. 2013
    ..In all, our data suggest that this protein falls into the pre-molten globule state of IDPs, with a significant tendency to become ordered in the presence of its partner as demonstrated in the presence of transcription factor IIB (TFIIB)...
  39. pmc Dual coding in alternative reading frames correlates with intrinsic protein disorder
    Erika Kovacs
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Karolina ut 29, H 1113 Budapest, Hungary
    Proc Natl Acad Sci U S A 107:5429-34. 2010
    ..By discussing several examples, we demonstrate that dual coding may be an effective mechanism for the evolutionary appearance of novel intrinsically disordered regions with new functions...
  40. ncbi request reprint Phosphorylation-induced transient intrinsic structure in the kinase-inducible domain of CREB facilitates its recognition by the KIX domain of CBP
    Iván Solt
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Proteins 64:749-57. 2006
    ....
  41. ncbi request reprint On the sequential determinants of calpain cleavage
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, P O Box 7, H 1518 Budapest, Hungary
    J Biol Chem 279:20775-85. 2004
    ..In the case of micro- and m-calpain, this substrate is kinetically superior to commercially available ones, and it can be used for the in vivo assessment of the activity of these ubiquitous mammalian calpains...
  42. doi request reprint Unstructural biology coming of age
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Curr Opin Struct Biol 21:419-25. 2011
    ....
  43. doi request reprint Long-range interactions in nonsense-mediated mRNA decay are mediated by intrinsically disordered protein regions
    Lajos Kalmar
    Institute of Enzymology, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Karolina ut 29, H 1113 Budapest, Hungary
    J Mol Biol 424:125-31. 2012
    ..Based on bioinformatic predictions, we suggest that fly-casting mechanisms enabled by long disordered regions in NMD complexes are exploited for the underlying effective long-range communication...
  44. doi request reprint Proteomic methods for the identification of intrinsically disordered proteins
    Agnes Tantos
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Methods Mol Biol 896:429-37. 2012
    ..Thus, such proteins are likely to remain soluble under these extreme conditions, making acid treatment and/or heat treatment suitable for substantial enrichment of intrinsically unfolded proteins in the soluble fraction...
  45. ncbi request reprint Prediction of protein disorder at the domain level
    Zsuzsanna Dosztanyi
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Curr Protein Pept Sci 8:161-71. 2007
    ..The primary focus of our review is the interpretation of prediction results in a way that enables segmentation of proteins to separate ordered domains from disordered regions...
  46. doi request reprint Structural disorder in proteins brings order to crystal growth in biomineralization
    Lajos Kalmar
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Bone 51:528-34. 2012
    ....
  47. ncbi request reprint A novel two-dimensional electrophoresis technique for the identification of intrinsically unstructured proteins
    Veronika Csizmok
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, H 1518 Budapest, Hungary
    Mol Cell Proteomics 5:265-73. 2006
    ..Overall the reproducibility and ease of performance of this technique may promote the proteomic scale recognition and characterization of protein disorder...
  48. ncbi request reprint Intrinsic structural disorder in cytoskeletal proteins
    Mainak Guharoy
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, Belgium
    Cytoskeleton (Hoboken) 70:550-71. 2013
    ..This pattern entails special consequences, in which the manifold functional advantages of structural disorder, most pronounced in regulatory and signaling functions, are all exploited by nature...
  49. doi request reprint New m-calpain substrate-based azapeptide inhibitors
    Zoltán Bánóczi
    Research Group of Peptide Chemistry, Hungarian Academy of Sciences, Eotvos Lorand University, Budapest, Hungary
    J Pept Sci 19:370-6. 2013
    ..Only changes at position P3 (Pro) are tolerated. Azapeptide analogs, described in this communication could be considered as useful set of compounds for elucidation of the enzyme interaction at P and P' sites...
  50. ncbi request reprint The interplay between structure and function in intrinsically unstructured proteins
    Peter Tompa
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, P O Box 7, H 1518 Budapest, Hungary
    FEBS Lett 579:3346-54. 2005
    ..Via all these details, it is demonstrated that in only a couple of years after its conception, the idea of protein disorder has already come of age and transformed our basic concepts of protein structure and function...
  51. ncbi request reprint pE-DB: a database of structural ensembles of intrinsically disordered and of unfolded proteins
    Mihaly Varadi
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels, European Molecular Biology Laboratory, Hamburg Unit, EMBL c o DESY, Hamburg, Germany, CEA, CNRS, UJF Grenoble 1, Protein Dynamics and Flexibility, Institut de Biologie Structurale Jean Pierre Ebel, 41 rue Jules Horowitz, Grenoble 38027, France, Indiana University School of Medicine Indianapolis, IN, USA, Department of Chemistry, Center of Magnetic Resonance CERM, University of Florence, Sesto Fiorentino, Italy, Molecular Structure and Function Program, Hospital for Sick Children, Toronto, Ontario, Canada, Department of Biochemistry, University of Toronto, Toronto, Ontario, Canada, Department of Structural Biology, St Jude Children s Research Hospital, Memphis, TN, USA, Department of Structural Biology, Weizmann Institute of Science, Rehovot 76100, Israel, Department of Molecular Medicine and USF Health Byrd Alzheimer s Research Institute, Morsani College of Medicine, University of South Florida, Tampa, FL, USA, Institute for Biological Instrumentation, Russian Academy of Sciences, Pushchino, Moscow Region
    Nucleic Acids Res 42:D326-35. 2014
    ..The availability of the pE-DB database is expected to promote the development of new modeling methods and leads to a better understanding of how function arises from disordered states. ..
  52. ncbi request reprint The DynaMine webserver: predicting protein dynamics from sequence
    Elisa Cilia
    MLG, Computer Science Department, Universite Libre de Bruxelles ULB, Brussels, Belgium Interuniversity Institute of Bioinformatics in Brussels IB, ULB VUB, Brussels, Belgium
    Nucleic Acids Res 42:W264-70. 2014
    ..The prediction results are visualized and can be directly downloaded. The DynaMine webserver, including instructive examples describing the meaning of the profiles, is available at http://dynamine.ibsquare.be. ..
  53. doi request reprint Functional classification of scaffold proteins and related molecules
    Laszlo Buday
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    FEBS J 277:4348-55. 2010
    ..Thus, the field is in a state of continuous advance and expansion, which demands that the classification scheme be regularly updated and, if needed, revised...
  54. doi request reprint Intrinsic disorder in cell signaling and gene transcription
    Agnes Tantos
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Mol Cell Endocrinol 348:457-65. 2012
    ..Our major goal is to elucidate how the functional requirements of these protein classes concur with specific functional modes disorder enables...
  55. doi request reprint Fuzzy complexes: a more stochastic view of protein function
    Monika Fuxreiter
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Adv Exp Med Biol 725:1-14. 2012
    ..As confirmed by all the other chapters of the book, we will show that new cases of fuzziness pop up at an accelerating pace, underscoring that this phenomenon presents a widespread novel paradigm of protein structure and function...
  56. ncbi request reprint Limitations of induced folding in molecular recognition by intrinsically disordered proteins
    Eszter Hazy
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, P O Box 7, 1518 Budapest, Hungary
    Chemphyschem 10:1415-9. 2009
    ..It is suggested that a new model describing the structure-function relationship of IDPs has to encompass such structural and functional promiscuity inherent in the disordered state of IDPs...
  57. doi request reprint The androgen receptor gene polyglycine repeat polymorphism is associated with memory performance in healthy Chinese individuals
    Denes Kovacs
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, H 1518 Budapest, Hungary
    Psychoneuroendocrinology 34:947-52. 2009
    ..002 for Immediate and p=0.014 for Delayed Logical Memory), but not in males (p=0.31 and 0.83, respectively). We conclude that functional variation of the androgen receptor gene is able to modulate memory function in women...
  58. ncbi request reprint Differential distribution of calpain small subunit 1 and 2 in rat brain
    Peter Friedrich
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, H 1518 Budapest, PO Box 7, Hungary
    Eur J Neurosci 19:1819-25. 2004
    ..The hypothesis is advanced that these distinct distributions of calpain subunits may be related to the transport of these enzymes in nerve cells...
  59. ncbi request reprint Discrete molecular dynamics can predict helical prestructured motifs in disordered proteins
    Dániel Szöllősi
    MTA SE Molecular Biophysics Research Group, Hungarian Academy of Sciences, Budapest, Hungary Department of Biophysics and Radiation Biology, Semmelweis University, Budapest, Hungary
    PLoS ONE 9:e95795. 2014
    ..Our results indicate that RX-DMD provides a breakthrough in the structural and dynamical characterization of disordered proteins by generating the structural ensembles of IDPs even when experimental data are not available. ..
  60. ncbi request reprint Preformed structural elements feature in partner recognition by intrinsically unstructured proteins
    Monika Fuxreiter
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    J Mol Biol 338:1015-26. 2004
    ..This finding implies that IUPs draw a functional advantage from preformed structural elements, as they enable their facile, kinetically and energetically less demanding, interaction with their physiological partner...
  61. pmc Malleable machines take shape in eukaryotic transcriptional regulation
    Monika Fuxreiter
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Karolina ut 29, H 1113, H 1518 Budapest, Hungary
    Nat Chem Biol 4:728-37. 2008
    ..All these features expand the capacities of ordered complexes and give rise to efficient regulatory mechanisms...
  62. pmc NMR relaxation studies on the hydrate layer of intrinsically unstructured proteins
    Monika Bokor
    Research Institute for Solid State Physics and Optics, Hungarian Academy of Sciences, Budapest, Hungary
    Biophys J 88:2030-7. 2005
    ..The theoretical treatment and experimental approach presented in this article may have general utility in characterizing proteins that belong to this novel structural class...
  63. doi request reprint Structural characterization of intrinsically disordered proteins by NMR spectroscopy
    Simone Kosol
    VIB Department of Structural Biology, Vrije Universiteit Brussel, Brussels 1050, Belgium
    Molecules 18:10802-28. 2013
    ..Here, we address NMR experiments and strategies that enable the generation of detailed structural models of IDPs. ..
  64. doi request reprint Identification of intrinsically disordered proteins by a special 2D electrophoresis
    Agnes Tantos
    Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary
    Methods Mol Biol 896:215-22. 2012
    ....