Coevolved residues and the functional association for intrinsically disordered proteins

Pacific Symposium on Biocomputing

Volumn , Issue , 2012, Pages 140-151

  Jeong, Chan Seok ^a   Kim, Dongsup ^a  

^a Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGY;

BIOLOGICAL FUNCTIONS; CONSERVED RESIDUES; DEGREE DISTRIBUTIONS; DISORDERED PROTEINS; DISORDERED REGIONS; EVOLUTIONARY CHANGES; FUNCTIONAL ASSOCIATIONS; INTRINSICALLY DISORDERED PROTEINS;

PROTEINS;

PROTEIN;

ARTICLE; BIOLOGY; CHEMISTRY; GENETICS; MOLECULAR EVOLUTION; NUCLEOTIDE SEQUENCE; PHYSIOLOGY; PROTEIN CONFORMATION; PROTEIN DATABASE; SEQUENCE ALIGNMENT;

COMPUTATIONAL BIOLOGY; CONSERVED SEQUENCE; DATABASES, PROTEIN; EVOLUTION, MOLECULAR; PROTEIN CONFORMATION; PROTEINS; SEQUENCE ALIGNMENT;

EID: 84868266775     PISSN: 23356928     EISSN: 23356936     Source Type: Journal    
DOI: None     Document Type: Conference Paper

References (46)

1. P. Radivojac, L. M. Iakoucheva, C. J. Oldfield, Z. Obradovic, V. N. Uversky and A. K. Dunker, Biophys. J. 92, 1439 (March 2007).
2. A. K. Dunker, C. J. Brown, J. D. Lawson, L. M. Iakoucheva and Z. Obradovic, Biochemistry 41, 6573 (May 2002).
3. Z. Dosztanyi, B. Meszaros and I. Simon, Brief Bioinformatics 11, 225 (March 2010).
4. P. Romero, Z. Obradovic, X. Li, E. C. Garner, C. J. Brown and A. K. Dunker, Proteins 42, 38 (January 2001).
5. P. Radivojac, Z. Obradovic, C. J. Brown and A. K. Dunker, Pac Symp Biocomput, 589 (2002).
6. C. J. Brown, A. K. Johnson and G. W. Daughdrill, Mol Biol Evol 27, 609 (March 2010).
7. C. Schaefer, A. Schlessinger and B. Rost, Bioinformatics 26, 625 (March 2010).
8. C. J. Brown, A. K. Johnson, A. K. Dunker and G. W. Daughdrill, Curr Opin Struct Biol 21, 441 (June 2011).
9. S. Chakrabarti and A. R. Panchenko, PLoS ONE 5, p. e8591 (January 2010).
10. A. Kowarsch, A. Fuchs, D. Frishman and P. Pagel, PLoS Comput Biol 6, p. e1000923 (2010).
11. B.-C. Lee and D. Kim, Bioinformatics 25, 2506 (October 2009).
12. N. Halabi, O. Rivoire, S. Leibler and R. Ranganathan, Cell 138, 774 (August 2009).
13. S. Chakrabarti and A. R. Panchenko, Proteins 75, 231 (April 2009).
14. J. Jeon, H.-J. Nam, Y. Choi, J.-S. Yang, J. Hwang and S. Kim, Mol Biol Evol (April 2011).
15. J. Bellay, S. Han, M. Michaut, T. Kim, M. Costanzo, B. J. Andrews, C. Boone, G. D. Bader, C. L. Myers and P. M. Kim, Genome biology 12, p. R14 (February 2011).
16. M. Sickmeier, J. A. Hamilton, T. LeGall, V. Vacic, M. S. Cortese, A. Tantos, B. Szabo, P. Tompa, J. Chen, V. N. Uversky, Z. Obradovic and A. K. Dunker, Nucleic Acids Res 35, D786 (January 2007).
17. W. Li and A. Godzik, Bioinformatics 22, 1658 (July 2006).
18. C. M. Buslje, J. Santos, J. M. Delfino and M. Nielsen, Bioinformatics 25, 1125 (May 2009).
19. S. D. Dunn, L. M. Wahl and G. B. Gloor, Bioinformatics 24, 333 (February 2008).
20. S. F. Altschul, T. L. Madden, A. A. Schäffer, J. Zhang, Z. Zhang, W. Miller and D. J. Lipman, Nucleic Acids Res 25, 3389 (September 1997).
21. J. Söding, Bioinformatics 21, 951 (April 2005).
22. R. C. Edgar, Nucleic Acids Res 32, 1792 (January 2004).
23. S. Henikoff and J. G. Henikoff, J Mol Biol 243, 574 (November 1994).
24. A. Biegert and J. Söding, Proc Natl Acad Sci USA 106, 3770 (March 2009).
25. J. Pei and N. V. Grishin, Bioinformatics 17, 700 (August 2001).
26. R. Linding, L. J. Jensen, F. Diella, P. Bork, T. J. Gibson and R. B. Russell, Structure/Folding and Design 11, 1453 (November 2003).
27. P. Tompa, Trends Biochem. Sci. 27, 527 (October 2002).
28. V. N. Uversky, Protein Sci 11, 739 (April 2002).
29. H. J. Dyson and P. E. Wright, Nat. Rev. Mol. Cell Biol. 6, 197 (March 2005).
30. F. Diella, N. Haslam, C. Chica, A. Budd, S. Michael, N. P. Brown, G. Trave and T. J. Gibson, Front. Biosci. 13, 6580 (2008).
31. A. P. Demchenko, J. Mol. Recognit. 14, 42 (2001).
32. H. J. Dyson and P. E. Wright, Curr Opin Struct Biol 12, 54 (February 2002).
33. R. S. Spolar and M. T. Record, Science 263, 777 (February 1994).
34. G. Shackelford and K. Karplus, Proteins 69 Suppl 8, 159 (January 2007).
35. U. Göbel, C. Sander, R. Schneider and A. Valencia, Proteins 18, 309 (April 1994).
36. F. Orosz and J. Ovádi, Bioinformatics 27, 1449 (June 2011).
37. Z. Dosztanyi, V. Csizmok, P. Tompa and I. Simon, Bioinformatics 21, 3433 (August 2005).
38. O. V. Galzitskaya, S. O. Garbuzynskiy and M. Y. Lobanov, Bioinformatics 22, 2948 (December 2006).
39. A. Schlessinger, M. Punta and B. Rost, Bioinformatics 23, 2376 (September 2007).
40. M. Punta and B. Rost, Bioinformatics 21, 2960 (July 2005).
41. A. D. Fernandes and G. B. Gloor, Bioinformatics 26, 1135 (May 2010).
42. J. D. Thompson, B. Linard, O. Lecompte and O. Poch, PLoS ONE 6, p. e18093 (2011).
43. F. Ferron, S. Longhi, B. Canard and D. Karlin, Proteins 65, 1 (October 2006).
44. J. W. Chen, P. Romero, V. N. Uversky and A. K. Dunker, J. Proteome Res. 5, 888 (April 2006).
45. J. W. Chen, P. Romero, V. N. Uversky and A. K. Dunker, J. Proteome Res. 5, 879 (April 2006).
46. J. J. Ward, J. S. Sodhi, L. J. McGuffin, B. F. Buxton and D. T. Jones, J Mol Biol 337, 635 (March 2004).