Unmasking functional motifs within disordered regions of proteins

Science Signaling

Volumn 5, Issue 220, 2012, Pages

  Das, Rahul K ^a   Mao, Albert H ^a   Pappu, Rohit V ^a  

^a WASHINGTON UNIVERSITY IN ST LOUIS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; CLINICAL ASSESSMENT; GENOMICS; MOLECULAR INTERACTION; NONHUMAN; PHYLOGENY; PREDICTION; PRIORITY JOURNAL; PROTEIN ENGINEERING; PROTEIN FUNCTION; PROTEIN MOTIF; REVIEW; SACCHAROMYCES CEREVISIAE; SIGNAL TRANSDUCTION; ARTICLE; CHEMISTRY; METHODOLOGY; PROTEIN CONFORMATION;

PROTEIN;

AMINO ACID MOTIFS; GENOMICS; PROTEIN CONFORMATION; PROTEINS;

EID: 84859976535     PISSN: 19450877     EISSN: 19379145     Source Type: Journal    
DOI: 10.1126/scisignal.2003091     Document Type: Review

References (18)

1. A. K. Dunker, C. J. Oldfi eld, J. Meng, P. Romero, J. Y. Yang, J. W. Chen, V. Vacic, Z. Obradovic, V. N. Uversky, The unfoldomics decade: An update on intrinsically disordered proteins. BMC Genomics 9 (suppl. 2), S1 (2008).
2. C. J. Oldfi eld, E. L. Ulrich, Y. G. Cheng, A. K. Dunker, J. L. Markley, Addressing the intrinsic disorder bottleneck in structural proteomics. Proteins 59, 444-453 (2005).
3. H. J. Dyson, P. E. Wright, Intrinsically unstructured proteins and their functions. Nat. Rev. Mol. Cell Biol. 6, 197-208 (2005).
4. C. J. Oldfi eld, Y. Cheng, M. S. Cortese, C. J. Brown, V. N. Uversky, A. K. Dunker, Comparing and combining predictors of mostly disordered proteins. Biochemistry 44, 1989-2000 (2005).
5. C. J. Oldfi eld, V. N. Uversky, A. K. Dunker, Analysis of the role of intrinsic disorder in multiple specifi city. J. Biomol. Struct. Dyn. 26, 807-807 (2009); http://www.jbsdonline.com/mc-files/1/BookAbstracts16th.pdf
6. A. N. Nguyen Ba, B. J. Yeh, D. van Dyk, A. R. Davidson, B. J. Andrews, E. L. Weiss, A. M. Moses, Proteome-wide discovery of evolutionary conserved sequences in disordered regions. Sci. Signal. 5, rs1 (2012).
7. K. A. Janes, J. R. Kelly, S. Gaudet, J. G. Albeck, P. K. Sorger, D. A. Lauffenburger, Cue-signal-response analysis of TNF-induced apoptosis by partial least squares regression of dynamic multivariate data. J. Comput. Biol. 11, 544-561 (2004).
8. N. P. C. Allen, L. Huang, A. Burlingame, M. Rexach, Proteomic analysis of nucleoporin interacting proteins. J. Biol. Chem. 276, 29268-29274 (2001).
9. J. Gsponer, M. E. Futschik, S. A. Teichmann, M. M. Babu, Tight regulation of unstructured proteins: from transcript synthesis to protein degradation. Science 322, 1365-1368 (2008).
10. H. Jeong, S. P. Mason, A. L. Barabási, Z. N. Oltvai, Lethality and centrality in protein networks. Nature 411, 41-42 (2001).
11. Z. Dosztányi, J. Chen, A. K. Dunker, I. Simon, P. Tompa, Disorder and sequence repeats in hub proteins and their implications for network evolution. J. Proteome Res. 5, 2985-2995 (2006).
12. A. K. Dunker, M. S. Cortese, P. Romero, L. M. Iakoucheva, V. N. Uversky, Flexible nets: The roles of intrinsic disorder in protein interaction networks. FEBS J. 272, 5129-5148 (2005).
13. C. Haynes, C. J. Oldfi eld, F. Ji, N. Klitgord, M. E. Cusick, P. Radivojac, V. N. Uversky, M. Vidal, L. M. Iakoucheva, Intrinsic disorder is a common feature of hub proteins from four eukaryotic interactomes. PLOS Comput. Biol. 2, e100 (2006).
14. K. Gunasekaran, C. J. Tsai, S. Kumar, D. Zanuy, R. Nussinov, Extended disordered proteins: Targeting function with less scaffold. Trends Biochem. Sci. 28, 81-85 (2003).
15. A. H. Mao, S. L. Crick, A. Vitalis, C. L. Chicoine, R. V. Pappu, Net charge per residue modulates conformational ensembles of intrinsically disordered proteins. Proc. Natl. Acad. Sci. U.S.A. 107, 8183-8188 (2010).
16. S. Müller-Späth, A. Soranno, V. Hirschfeld, H. Hofmann, S. Rüegger, L. Reymond, D. Nettels, B. Schuler, From the Cover: Charge interactions can dominate the dimensions of intrinsically disordered proteins. Proc. Natl. Acad. Sci. U.S.A. 107, 14609-14614 (2010).
17. B. J. Lee, A. E. Cansizoglu, K. E. Süel, T. H. Louis, Z. Zhang, Y. M. Chook, Rules for nuclear localization sequence recognition by karyopherin beta 2. Cell 126, 543-558 (2006).
18. R. K. Das, S. L. Crick, R. V. Pappu, N-terminal segments modulate the α-helical propensities of the intrinsically disordered basic regions of bZIP proteins. J. Mol. Biol. 416, 287-299 (2012).