Modulation of allostery by protein intrinsic disorder

Nature

Volumn 498, Issue 7454, 2013, Pages 390-394

  Ferreon, Allan Chris M ^a   Ferreon, Josephine C ^a   Wright, Peter E ^a   Deniz, Ashok A ^a  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CYCLIC AMP RESPONSIVE ELEMENT BINDING PROTEIN BINDING PROTEIN; E1A PROTEIN; RETINOBLASTOMA PROTEIN;

EXPERIMENTAL STUDY; GENE EXPRESSION; PROTEIN; PROTEOMICS; SIGNALING; THERMODYNAMIC PROPERTY;

ALLOSTERISM; ARTICLE; BINDING AFFINITY; FLUORESCENCE RESONANCE ENERGY TRANSFER; NONHUMAN; PRIORITY JOURNAL; PROTEIN AGGREGATION; PROTEIN BINDING; PROTEIN DEFECT; PROTEIN FOLDING; PROTEIN INTRINSIC DISORDER; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE; SENSITIVITY ANALYSIS;

ADENOVIRUS E1A PROTEINS; ALLOSTERIC REGULATION; AMINO ACID MOTIFS; ANIMALS; ANISOTROPY; CREB-BINDING PROTEIN; FLUORESCENCE RESONANCE ENERGY TRANSFER; HUMANS; MICE; MODELS, MOLECULAR; P300-CBP TRANSCRIPTION FACTORS; PROTEIN BINDING; PROTEIN FOLDING; PROTEIN STRUCTURE, TERTIARY; RETINOBLASTOMA PROTEIN; THERMODYNAMICS;

ADENOVIRIDAE;

EID: 84879327823     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature12294     Document Type: Article

References (32)

1. Hilser, V. J. & Thompson, E. B. Intrinsic disorder as a mechanism to optimize allosteric coupling in proteins. Proc. Natl Acad. Sci. USA 104, 8311-8315 (2007).
2. Garcia-Pino, A. et al. Allostery and intrinsic disorder mediate transcription regulation by conditional cooperativity. Cell 142, 101-111 (2010).
3. Dyson, H. J. & Wright, P. E. Intrinsically unstructured proteins and their functions. Nature Rev. Mol. Cell Biol. 6, 197-208 (2005).
4. Xie, H. et al. Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. J. Proteome Res. 6, 1882-1898 (2007).
5. Pelka, P., Ablack, J. N., Fonseca, G. J., Yousef, A. F. & Mymryk, J. S. Intrinsic structural disorder in adenovirus E1A: a viral molecular hub linking multiple diverse processes. J. Virol. 82, 7252-7263 (2008).
6. Ferrari, R. et al. Epigenetic reprogramming by adenovirus e1a. Science 321, 1086-1088 (2008).
7. Horwitz, G. A. et al. Adenovirus small e1a alters global patterns of histone modification. Science 321, 1084-1085 (2008).
8. Uversky, V. N., Oldfield, C. J. & Dunker, A. K. Intrinsically disordered proteins in human diseases: introducing the D2 concept. Annu. Rev. Biophys. 37, 215-246 (2008).
9. Davey, N. E., Trave, G. & Gibson, T. J. How viruses hijack cell regulation. Trends Biochem. Sci. 36, 159-169 (2011).
10. Berk, A. J. Recent lessons in gene expression, cell cycle control, and cell biology from adenovirus. Oncogene 24, 7673-7685 (2005).
11. Ferreon, J. C., Martinez-Yamout, M. A., Dyson, H. J. & Wright, P. E. Structural basis for subversion of cellular control mechanisms by the adenoviral E1A oncoprotein. Proc. Natl Acad. Sci. USA 106, 13260-13265 (2009).
12. Liu, X. & Marmorstein, R. Structure of the retinoblastoma protein bound to adenovirus E1A reveals the molecular basis for viral oncoprotein inactivation of a tumor suppressor. Genes Dev. 21, 2711-2716 (2007).
13. Ferreon, A. C. M., Moran, C. R., Gambin, Y. & Deniz, A. A. Single-molecule fluorescence studies of intrinsically disordered proteins. Methods Enzymol. 472, 179-204 (2010).
14. Deniz, A. A., Mukhopadhyay, S. & Lemke, E. A. Single-molecule biophysics: at the interface of biology, physics and chemistry. J. R. Soc. Interface 5, 15-45 (2008).
15. Lee, J.-O., Russo, A. A. & Pavletich, N. P. Structure of the retinoblastoma tumoursuppressor pocketdomainbound to a peptidefromHPVE7. Nature391, 859-865 (1998).
16. Ferreon, A. C. M., Ferreon, J. C., Bolen, D. W.& Rösgen, J. Protein phase diagrams II: nonideal behavior of biochemical reactions in the presence of osmolytes. Biophys. J. 92, 245-256 (2007).
17. Kuriyan, J. & Eisenberg, D. The origin of protein interactions and allostery in colocalization. Nature 450, 983-990 (2007).
18. Heise, C. et al. An adenovirus E1A mutant that demonstrates potent and selective systemic anti-tumoral efficacy. Nature Med. 6, 1134-1139 (2000).
19. Hilser, V. J. & Thompson, E. B. Intrinsic disorder as a mechanism to optimize allosteric coupling in proteins. Proc. Natl Acad. Sci. USA 104, 8311-8315 (2007).
20. Cui, Q. & Karplus, M. Allostery and cooperativity revisited. Protein Sci. 17, 1295-1307 (2008).
21. Wang, H.-G. H., Moran, E. & Yaciuk, P.E1A promotes associationbetween p300 and pRB in multimeric complexes required for normal biological activity. J. Virol. 69, 7917-7924 (1995).
22. Chan, H. M., Krstic-Demonacos, M., Smith, L., Demonacos, C. & La Thangue, N. B. Acetylation control of the retinoblastoma tumour-suppressor protein. Nature Cell Biol. 3, 667-674 (2001).
23. Nguyen, D. X., Baglia, L. A., Huang, S.-M., Baker, C. M. & McCance, D. J. Acetylation regulates the differentiation-specific functions of the retinoblastoma protein. EMBO J. 23, 1609-1618 (2004).
24. Koshland, D. E. Jr. The structural basis of negative cooperativity: receptors and enzymes. Curr. Opin. Struct. Biol. 6, 757-761 (1996).
25. Sang, N., Avantaggiati, M. L. & Giordano, A. Roles of p300, pocket proteins, and hTBP in E1A-mediated transcriptional regulation and inhibition of p53 transactivation activity. J. Cell. Biochem. 66, 277-285 (1997).
26. Green, M., Panesar, N. K. & Loewenstein, P. M. The transcription-repression domain of the adenovirus E1A oncoprotein targets p300 at the promoter. Oncogene 27, 4446-4455 (2008).
27. Motlagh, H. N. & Hilser, V. J. Agonism/antagonism switching in allosteric ensembles. Proc. Natl Acad. Sci. USA 109, 4134-4139 (2012).
28. Modrek, B. & Lee, C.Agenomicviewof alternative splicing.NatureGenet. 30,13-19 (2002).
29. Lee, C. W., Ferreon, J. C., Ferreon, A. C. M., Arai, M. A. & Wright, P. E. Graded enhancement of p53 binding to CBP/p300 by multisite phosphorylation. Proc. Natl Acad. Sci. USA 107, 19290-19295 (2010).
30. Ferreon, A. C. M., Gambin, Y., Lemke, E. A. & Deniz, A. A. Interplay of a-synuclein binding and conformational switching probed by single-molecule fluorescence. Proc. Natl Acad. Sci. USA 106, 5645-5650 (2009).
31. Kadri, Z. et al. Direct binding of pRb/E2F-2 to GATA-1 regulates maturation and terminal cell division during erythropoiesis. PLoS Biol. 7, 1-15 (2009).
32. Rösgen, J. & Hinz, H. J. Phase diagrams: a graphical representation of linkage relations. J. Mol. Biol. 328, 255-271 (2003).