Display options
Cite
Uversky AV, Xue B, Peng Z, et al. On the intrinsic disorder status of the major players in programmed cell death pathways. F1000Res. 2013;2:190doi: 10.12688/f1000research.2-190.v1.
Uversky, A. V., Xue, B., Peng, Z., Kurgan, L., & Uversky, V. N. (2013). On the intrinsic disorder status of the major players in programmed cell death pathways. F1000Research, 2190. https://doi.org/10.12688/f1000research.2-190.v1
Uversky, Alexey V, et al. "On the intrinsic disorder status of the major players in programmed cell death pathways." F1000Research vol. 2 (2013): 190. doi: https://doi.org/10.12688/f1000research.2-190.v1
Uversky AV, Xue B, Peng Z, Kurgan L, Uversky VN. On the intrinsic disorder status of the major players in programmed cell death pathways. F1000Res. 2013 Sep 17;2:190. doi: 10.12688/f1000research.2-190.v1. eCollection 2013. PMID: 24358900; PMCID: PMC3829196.
Copy Download .nbib Format: NLM
Share it on

F1000Res. 2013 Sep 17;2:190. doi: 10.12688/f1000research.2-190.v1. eCollection 2013.

On the intrinsic disorder status of the major players in programmed cell death pathways.

F1000Research

Alexey V Uversky, Bin Xue, Zhenling Peng, Lukasz Kurgan, Vladimir N Uversky

Affiliations

  1. Center for Data Analytics and Biomedical Informatics, Department of Computer and Information Sciences, College of Science and Technology, Temple University, Philadelphia, PA, 19122, USA.
  2. Department of Molecular Medicine, College of Medicine, University of South Florida, Tampa, FL, 33612, USA.
  3. Department of Electrical and Computer Engineering, University of Alberta, Edmonton, Canada.
  4. Department of Molecular Medicine, College of Medicine, University of South Florida, Tampa, FL, 33612, USA ; Byrd Alzheimer's Research Institute, College of Medicine, University of South Florida, Tampa, FL, 33612, USA ; Institute for Biological Instrumentation, Russian Academy of Sciences, 142290 Pushchino, Russian Federation.

PMID: 24358900 PMCID: PMC3829196 DOI: 10.12688/f1000research.2-190.v1

Abstract

Earlier computational and bioinformatics analysis of several large protein datasets across 28 species showed that proteins involved in regulation and execution of programmed cell death (PCD) possess substantial amounts of intrinsic disorder. Based on the comprehensive analysis of these datasets by a wide array of modern bioinformatics tools it was concluded that disordered regions of PCD-related proteins are involved in a multitude of biological functions and interactions with various partners, possess numerous posttranslational modification sites, and have specific evolutionary patterns (Peng et al. 2013). This study extends our previous work by providing information on the intrinsic disorder status of some of the major players of the three major PCD pathways: apoptosis, autophagy, and necroptosis. We also present a detailed description of the disorder status and interactomes of selected proteins that are involved in the p53-mediated apoptotic signaling pathways.

References

  1. Proteins. 2002 Jan 1;46(1):1-7 - PubMed
  2. Curr Alzheimer Res. 2008 Jun;5(3):260-87 - PubMed
  3. Nat Cell Biol. 2002 Nov;4(11):842-9 - PubMed
  4. Cell Death Differ. 2010 May;17(5):735-6 - PubMed
  5. Annu Rev Genet. 2009;43:67-93 - PubMed
  6. Cell. 2013 Jan 31;152(3):519-31 - PubMed
  7. PeerJ. 2013 Feb 12;1:e2 - PubMed
  8. Curr Mol Med. 2008 May;8(3):187-206 - PubMed
  9. Curr Opin Neurobiol. 1999 Oct;9(5):566-70 - PubMed
  10. Cell Prolif. 2012 Dec;45(6):487-98 - PubMed
  11. Annu Rev Biophys. 2008;37:215-46 - PubMed
  12. Cell Death Differ. 2003 Jan;10(1):26-35 - PubMed
  13. Curr Cancer Drug Targets. 2008 Mar;8(2):87-97 - PubMed
  14. Proteins. 2006 May 1;63(2):398-410 - PubMed
  15. Bioinformatics. 2009 Oct 15;25(20):2745-6 - PubMed
  16. Biochem Biophys Res Commun. 2011 Oct 14;414(1):5-8 - PubMed
  17. Proc Natl Acad Sci U S A. 2005 Oct 25;102(43):15412-7 - PubMed
  18. FEBS Lett. 2000 Feb 25;468(2-3):134-6 - PubMed
  19. PLoS Comput Biol. 2006 Aug 4;2(8):e100 - PubMed
  20. FEBS Lett. 2006 Apr 3;580(8):2041-5 - PubMed
  21. J Biol Chem. 2000 Sep 22;275(38):29426-32 - PubMed
  22. EMBO J. 1997 Mar 3;16(5):968-77 - PubMed
  23. Cell Death Dis. 2010 May 13;1:e41 - PubMed
  24. BMC Genomics. 2009 Jul 07;10 Suppl 1:S7 - PubMed
  25. Trends Mol Med. 2009 Nov;15(11):531-41 - PubMed
  26. Pharm Res. 2009 Jul;26(7):1547-60 - PubMed
  27. Science. 1996 Nov 8;274(5289):948-53 - PubMed
  28. Biochemistry. 2006 Sep 5;45(35):10448-60 - PubMed
  29. Proteins. 2006 Apr 1;63(1):35-42 - PubMed
  30. J Proteome Res. 2007 May;6(5):1899-916 - PubMed
  31. Curr Pharm Des. 2013;19(23):4191-213 - PubMed
  32. Nat Cell Biol. 2003 Dec;5(12):1041-3 - PubMed
  33. Nat Rev Mol Cell Biol. 2005 Mar;6(3):197-208 - PubMed
  34. Neuropharmacology. 2003 Jul;45(1):14-44 - PubMed
  35. Biophys J. 2007 Mar 1;92(5):1439-56 - PubMed
  36. J Biomol Struct Dyn. 2012;30(2):137-49 - PubMed
  37. Biochem J. 1997 Aug 15;326 ( Pt 1):1-16 - PubMed
  38. EMBO J. 2005 Oct 5;24(19):3411-22 - PubMed
  39. Mol Biosyst. 2012 Jul 6;8(7):1886-901 - PubMed
  40. N Engl J Med. 2001 May 17;344(20):1516-26 - PubMed
  41. Biochemistry. 2007 Nov 27;46(47):13468-77 - PubMed
  42. J Biol Chem. 2001 Dec 21;276(51):48404-9 - PubMed
  43. J Proteome Res. 2007 May;6(5):1917-32 - PubMed
  44. J Cell Biochem. 2011 Nov;112(11):3256-67 - PubMed
  45. J Mol Biol. 2004 Mar 26;337(3):635-45 - PubMed
  46. Nature. 2001 Jul 5;412(6842):90-4 - PubMed
  47. Bioessays. 1994 Feb;16(2):133-8 - PubMed
  48. Cell. 2009 Jul 23;138(2):229-32 - PubMed
  49. Nucleic Acids Res. 2000 Jan 1;28(1):235-42 - PubMed
  50. Acta Crystallogr D Biol Crystallogr. 1998 Jan 1;54(Pt 1):86-9 - PubMed
  51. J Mol Biol. 2012 May 18;418(5):267-8 - PubMed
  52. Biochim Biophys Acta. 2010 Apr;1804(4):996-1010 - PubMed
  53. Genome Biol. 2006;7(6):R45 - PubMed
  54. PLoS Comput Biol. 2009 May;5(5):e1000376 - PubMed
  55. Curr Opin Struct Biol. 2008 Dec;18(6):756-64 - PubMed
  56. Cell Mol Life Sci. 2010 May;67(10):1567-79 - PubMed
  57. Cell Death Differ. 2013 Sep;20(9):1257-67 - PubMed
  58. Biochim Biophys Acta. 2006 Sep-Oct;1757(9-10):1371-87 - PubMed
  59. J Mol Biol. 1999 Oct 22;293(2):321-31 - PubMed
  60. Biochim Biophys Acta. 2010 Dec;1806(2):220-9 - PubMed
  61. Nat Immunol. 2000 Dec;1(6):489-95 - PubMed
  62. Science. 2000 May 12;288(5468):1053-8 - PubMed
  63. Semin Cancer Biol. 1998;8(5):345-57 - PubMed
  64. Cell Death Dis. 2011 Mar 31;2:e136 - PubMed
  65. Biochem Biophys Res Commun. 1984 Aug 16;122(3):1131-5 - PubMed
  66. Toxicol Lett. 2003 Apr 4;139(2-3):119-23 - PubMed
  67. Sci Rep. 2013;3:2035 - PubMed
  68. Methods Mol Biol. 2003;234:65-71 - PubMed
  69. J Proteome Res. 2006 Nov;5(11):2985-95 - PubMed
  70. Oncogene. 2003 Dec 8;22(56):9030-40 - PubMed
  71. Curr Opin Immunol. 1998 Oct;10(5):545-51 - PubMed
  72. Science. 1991 Feb 8;251(4994):675-8 - PubMed
  73. PLoS One. 2012;7(11):e48243 - PubMed
  74. Biochem Biophys Res Commun. 2002 Apr 26;293(1):349-55 - PubMed
  75. J Mol Biol. 2002 Oct 25;323(3):573-84 - PubMed
  76. Trends Biochem Sci. 2010 Oct;35(10):556-64 - PubMed
  77. Biochemistry. 2012 Jan 17;51(2):575-7 - PubMed
  78. Curr Opin Struct Biol. 2002 Feb;12(1):54-60 - PubMed
  79. Nat Med. 2000 May;6(5):513-9 - PubMed
  80. J Biol Chem. 2011 Apr 22;286(16):13985-94 - PubMed
  81. Structure. 2009 Feb 13;17(2):202-10 - PubMed
  82. J Cell Physiol. 2003 May;195(2):158-67 - PubMed
  83. Acta Pharmacol Sin. 2010 Sep;31(9):1154-64 - PubMed
  84. Cell Signal. 2002 May;14(5):381-95 - PubMed
  85. Proteins. 2001 Jan 1;42(1):38-48 - PubMed
  86. Neurology. 1985 Jul;35(7):957-61 - PubMed
  87. Bioinformatics. 2005 Aug 15;21(16):3433-4 - PubMed
  88. Nat Struct Mol Biol. 2006 Mar;13(3):285-91 - PubMed
  89. Biochim Biophys Acta. 2010 Jun;1804(6):1231-64 - PubMed
  90. Cancer Lett. 2011 Jan 28;300(2):105-14 - PubMed
  91. EMBO J. 1985 Nov;4(11):2757-63 - PubMed
  92. Mol Biosyst. 2008 Apr;4(4):328-40 - PubMed
  93. Cell Res. 2000 Sep;10(3):161-7 - PubMed
  94. J Biol Chem. 2011 Mar 4;286(9):7123-31 - PubMed
  95. J Bioinform Comput Biol. 2005 Feb;3(1):35-60 - PubMed
  96. Cell Death Differ. 2007 Mar;14(3):447-52 - PubMed
  97. Protein Pept Lett. 2008;15(9):956-63 - PubMed
  98. Cell Res. 2008 Mar;18(3):343-9 - PubMed
  99. Nucleic Acids Res. 2011 Jan;39(Database issue):D561-8 - PubMed
  100. J Proteome Res. 2007 May;6(5):1882-98 - PubMed
  101. Genes Dev. 2000 Feb 1;14(3):289-300 - PubMed
  102. Mol Cell. 2007 Sep 7;27(5):717-30 - PubMed
  103. Nature. 2001 Jul 5;412(6842):95-9 - PubMed
  104. J Mol Biol. 2005 Apr 8;347(4):827-39 - PubMed
  105. Am J Reprod Immunol. 2010 Sep;64(3):159-69 - PubMed
  106. Pac Symp Biocomput. 1998;:473-84 - PubMed
  107. Bioinformatics. 2005 Aug 15;21(16):3435-8 - PubMed
  108. Cell Death Differ. 2000 Dec;7(12):1145 - PubMed
  109. Proc Natl Acad Sci U S A. 1999 Dec 7;96(25):14517-22 - PubMed
  110. Proc Natl Acad Sci U S A. 1993 Dec 1;90(23):11282-6 - PubMed
  111. Nat Rev Mol Cell Biol. 2004 Sep;5(9):752-62 - PubMed
  112. J Mol Recognit. 2005 Sep-Oct;18(5):343-84 - PubMed
  113. Adv Protein Chem. 2002;62:25-49 - PubMed
  114. Br J Cancer. 2001 Dec 14;85(12):1813-23 - PubMed
  115. Biochemistry. 2005 Sep 20;44(37):12454-70 - PubMed
  116. J Biomed Biotechnol. 2010;2010:568068 - PubMed
  117. Biochim Biophys Acta. 2013 May;1834(5):932-51 - PubMed
  118. Mol Cell. 2001 Mar;7(3):683-94 - PubMed
  119. Kidney Int Suppl. 2003 May;(84):S22-4 - PubMed
  120. Cell Death Differ. 2007 Nov;14(11):1908-15 - PubMed
  121. BMC Bioinformatics. 2006 Apr 17;7:208 - PubMed
  122. Nat Cell Biol. 2007 Oct;9(10):1102-9 - PubMed
  123. Nat Chem Biol. 2005 Jul;1(2):112-9 - PubMed
  124. FEBS J. 2005 Oct;272(20):5129-48 - PubMed
  125. Genome Inform Ser Workshop Genome Inform. 2000;11:161-71 - PubMed
  126. Chem Soc Rev. 2011 Mar;40(3):1623-34 - PubMed
  127. Apoptosis. 2010 Mar;15(3):257-68 - PubMed
  128. Nat Chem Biol. 2008 Apr;4(4):229-30 - PubMed
  129. Trends Cell Biol. 1998 Jul;8(7):267-71 - PubMed
  130. Curr Opin Gastroenterol. 2010 Jul;26(4):302-9 - PubMed
  131. Proteins. 2000 Nov 15;41(3):415-27 - PubMed
  132. Science. 1998 Aug 28;281(5381):1309-12 - PubMed
  133. Cell Cycle. 2007 Nov 1;6(21):2612-9 - PubMed
  134. Front Biosci (Landmark Ed). 2009 Jun 01;14:5188-238 - PubMed
  135. Nat Struct Biol. 2000 Jul;7(7):570-4 - PubMed
  136. J Proteome Res. 2007 Jun;6(6):2351-66 - PubMed
  137. Nature. 2002 Jul 11;418(6894):191-5 - PubMed
  138. Proteins. 2007 Aug 15;68(3):602-5 - PubMed
  139. Trends Biochem Sci. 2002 Oct;27(10):527-33 - PubMed
  140. J Mol Biol. 2006 Oct 6;362(5):1043-59 - PubMed
  141. Biochemistry. 2000 Mar 14;39(10):2708-13 - PubMed
  142. Cell Death Differ. 2003 Aug;10(8):864-9 - PubMed
  143. Biochemistry. 2005 Feb 15;44(6):1989-2000 - PubMed
  144. Cell. 2000 Sep 15;102(6):849-62 - PubMed
  145. Immunity. 2013 Feb 21;38(2):209-23 - PubMed
  146. Int Rev Cell Mol Biol. 2011;289:1-35 - PubMed
  147. Oncogene. 1994 Jun;9(6):1799-805 - PubMed
  148. BMC Genomics. 2009 Jul 07;10 Suppl 1:S12 - PubMed
  149. Nat Chem Biol. 2008 May;4(5):313-21 - PubMed
  150. Cancer Res. 2004 Apr 15;64(8):2766-73 - PubMed
  151. Proteins. 2007 Mar 1;66(4):761-5 - PubMed
  152. Genes Dev. 2000 Apr 15;14(8):981-93 - PubMed
  153. J Mol Graph Model. 2001;19(1):26-59 - PubMed
  154. Cell Death Differ. 2009 Jul;16(7):966-75 - PubMed
  155. Biochemistry. 2002 May 28;41(21):6573-82 - PubMed
  156. Oncogene. 2002 Feb 14;21(8):1299-303 - PubMed
  157. Protein Sci. 2002 Apr;11(4):739-56 - PubMed

Publication Types