Skip to main content

Analysis of Structure Prediction Tools in Mutated MeCP-2

  • Conference paper
  • 704 Accesses

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 3594))

Abstract

Methyl-CpG-binding protein 2 (MeCP2) belongs to the DNA-binding protein family that selectively binds to DNA methylated CpG-islands. MeCP2 acts like a transcriptional repressor, that contains a N-terminal methylated DNA-binding domain (MBD), and a C-terminal transcriptional repression domain (TRD). Mutations in MECP2 gene have been associated to Rett Syndrome – a neurological disorder linked to X-chromossome, and one of the most common causes of physical and intellectual dysfunction in females. The calculation of MeCP2 MDB had been solved, but the effects of the mutations on the protein’s structure and, consequently, functions have not been analyzed. Databases, systems, tools, and, more recently, protein structure motifs databases available on Internet make it possible to predict ab initio protein structure quickly. This extended abstract looks at the the use of these tools to analyze the effects of MeCP2’s mutations, which cause Rett syndrome, in the original protein structure.

This is a preview of subscription content, log in via an institution.

Buying options

Chapter
USD   29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD   39.99
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD   54.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Learn about institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Rett, A.: Uber ein eigenartiges hirnatrophisches Syndrome bei hyperammonamie in Kindsalter (On a unusual brain atrophy syndrome in hyperammonemia in childhood). Wiener Medizische Wochenschrift 116, 723–726 (1966)

    Google Scholar 

  2. Hagber, B., Aicardi, J., Dias, K., Ramos, O.: A progressive syndrome of autism, dementia, ataxia, and loss of purposeful hand use in girls Rett’s syndrome: report of 35 cases. Ann. Neurol. 4, 471–479 (1983)

    Article  Google Scholar 

  3. Kerr, A.M., et al.: Mind and brain in Rett disorder. Brain & Development 23, S44–S49 (2001)

    Article  Google Scholar 

  4. Kerr, A.M., Stephenson, J.B.P.: Rett’s syndrome in the west of Scotland. Br. Med. J. 291, 579–582 (1985)

    Article  Google Scholar 

  5. Amir, R.E., Van de Veyver, I.B., Wan, M., Tran, C.Q., Francke, U., Zoghby, H.Y.: Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-inding protein2. Nat. Genet. 23, 184–188 (1999)

    Google Scholar 

  6. Coy, J.F., Sedlacek, Z., Bachner, D., Delhius, H., Poustka, A.: A complex pattern of evolutionary conservation and alternative polyadenylation within the long 3’-untranslated region of the methyl-CpG-binding protein 2 gene (MECP2) suggests a regulatory role in gene expression. Hum. Mol. Genet. 7, 1253–1262 (1997)

    Google Scholar 

  7. Wakefield, R.I., Smith, B.O., Nan, X., Free, A., Soteriu, A., Uhrin, D., et al.: The solution structure os the domain from MeCp2 that binds to methylated DNA. J. Mol. Biol. 291, 1055–1065 (1999)

    Article  Google Scholar 

  8. Nan, X.S., Meehan, R.R., Bird, A.: Dissection of the methyl-CpG-binding domain from the chrmossomal protein MeCP2. Nucleic Acids Res. 21, 4886–4892 (1993)

    Article  Google Scholar 

  9. Nelson, D., Cox, M.: Lehninger: Principles of Biochemistry, 4th edn. W.H.Freeman Pub., New York (2004)

    Google Scholar 

  10. Kong, L., Ranganathan, S.: Delineation of modular proteins:Domain boundary prediction from sequence information. Briefings in Bioinformatics 5, 179–192 (2004)

    Article  Google Scholar 

  11. Murvai, J., et al.: Prediction of protein functional domains from sequences usin artificial neural networks. Genome Research 11, 1410–1417 (2001)

    Article  Google Scholar 

  12. Bystroff, C., Shao, Y.: Fully automated ab initio protein strucuture prediction using I-SITES, HMMMSTR and ROSETA. Bioinformatics. 18, S54–S61 (2002)

    Google Scholar 

  13. Sali, A., Blundell, T.L.: Comparative protein modelling by satisfaction of spatial restraints. In: Bohr, H., Brunak, S. (eds.) Protein Structure by Distance Analysis, pp. 64–86. IOS Press, Amsterdam (1994)

    Google Scholar 

  14. Prokop, M., Damborsky, J., Koca, J.: TRITON: in silico construction of protein mutants and prediction of their activities. Bioinformatics 16, 845–846 (2000)

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2005 Springer-Verlag Berlin Heidelberg

About this paper

Cite this paper

Franklin, D., da Silva Sendin, I. (2005). Analysis of Structure Prediction Tools in Mutated MeCP-2. In: Setubal, J.C., Verjovski-Almeida, S. (eds) Advances in Bioinformatics and Computational Biology. BSB 2005. Lecture Notes in Computer Science(), vol 3594. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11532323_27

Download citation

  • DOI: https://doi.org/10.1007/11532323_27

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-28008-8

  • Online ISBN: 978-3-540-31861-3

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics