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PMID: 20117254 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Review

Understanding protein non-folding.

Biochimica et biophysica acta ·Vol. 1804 ·No. 6 ·2010-06-00 ·Pages 1231-64

Uversky VN, Dunker AK

Abstract

This review describes the family of intrinsically disordered proteins, members of which fail to form rigid 3-D structures under physiological conditions, either along their entire lengths or only in localized regions. Instead, these intriguing proteins/regions exist as dynamic ensembles within which atom positions and backbone Ramachandran angles exhibit extreme temporal fluctuations without specific equilibrium values. Many of these intrinsically disordered proteins are known to carry out important biological functions which, in fact, depend on the absence of a specific 3-D structure. The existence of such proteins does not fit the prevailing structure-function paradigm, which states that a unique 3-D structure is a prerequisite to function. Thus, the protein structure-function paradigm has to be expanded to include intrinsically disordered proteins and alternative relationships among protein sequence, structure, and function. This shift in the paradigm represents a major breakthrough for biochemistry, biophysics and molecular biology, as it opens new levels of understanding with regard to the complex life of proteins. This review will try to answer the following questions: how were intrinsically disordered proteins discovered? Why don't these proteins fold? What is so special about intrinsic disorder? What are the functional advantages of disordered proteins/regions? What is the functional repertoire of these proteins? What are the relationships between intrinsically disordered proteins and human diseases?

MeSH Terms
Animals Humans Protein Folding Protein Structure, Tertiary Proteins/chemistry,genetics,metabolism Structure-Activity Relationship
Chemicals
Proteins
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Uversky Vladimir N
Institute for Intrinsically Disordered Protein Research, Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, IN 46202, USA. vuversky@iupui.edu
Dunker A Keith
References (390)
390 references, click to expand
  1. Splice variants of G protein-coupled receptors.
    Mol Interv. 2001 Jun;1(2):108-16 PMID: 14993330
  2. Protein disorder is positively correlated with gene expression in Escherichia coli.
    J Proteome Res. 2008 Jun;7(6):2234-45 PMID: 18465893
  3. RELATIVE CONFORMATIONS OF SPERM WHALE METMYOGLOBIN AND APOMYOGLOBIN IN SOLUTION.
    J Biol Chem. 1965 Jan;240:304-9 PMID: 14253429
  4. Predicting disordered regions in proteins using the profiles of amino acid indices.
    BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S42 PMID: 19208144
  5. Chaperonin-mediated protein folding at the surface of groEL through a 'molten globule'-like intermediate.
    Nature. 1991 Jul 4;352(6330):36-42 PMID: 1676490
  6. Protein intrinsic disorder and human papillomaviruses: increased amount of disorder in E6 and E7 oncoproteins from high risk HPVs.
    J Proteome Res. 2006 Aug;5(8):1829-42 PMID: 16889404
  7. A 'molten-globule' membrane-insertion intermediate of the pore-forming domain of colicin A.
    Nature. 1991 Dec 5;354(6352):408-10 PMID: 1956406
  8. The molten globule intermediate for protein insertion or translocation through membranes.
    Trends Cell Biol. 1992 Nov;2(11):343-8 PMID: 14731513
  9. The protein non-folding problem: amino acid determinants of intrinsic order and disorder.
    Pac Symp Biocomput. 2001;:89-100 PMID: 11262981
  10. p53 mediated death of cells overexpressing MDM2 by an inhibitor of MDM2 interaction with p53.
    Oncogene. 1999 Mar 18;18(11):1921-34 PMID: 10208414
  11. Protein disorder prediction: implications for structural proteomics.
    Structure. 2003 Nov;11(11):1453-9 PMID: 14604535
  12. Structural preordering in the N-terminal region of ribosomal protein S4 revealed by heteronuclear NMR spectroscopy.
    Biochemistry. 2000 Nov 7;39(44):13602-13 PMID: 11063598
  13. Flexible nets: disorder and induced fit in the associations of p53 and 14-3-3 with their partners.
    BMC Genomics. 2008;9 Suppl 1:S1 PMID: 18366598
  14. Denatured collapsed states in protein folding: example of apomyoglobin.
    Proteins. 2001 Aug 15;44(3):244-54 PMID: 11455597
  15. Characterization of intrinsically disordered proteins with electrospray ionization mass spectrometry: conformational heterogeneity of alpha-synuclein.
    Proteins. 2010 Feb 15;78(3):714-22 PMID: 19847913
  16. Function of alternative splicing.
    Gene. 2005 Jan 3;344:1-20 PMID: 15656968
  17. Fluorescence correlation spectroscopy shows that monomeric polyglutamine molecules form collapsed structures in aqueous solutions.
    Proc Natl Acad Sci U S A. 2006 Nov 7;103(45):16764-9 PMID: 17075061
  18. The molten globule state of alpha-lactalbumin.
    FASEB J. 1996 Jan;10(1):102-9 PMID: 8566530
  19. Polyglutamine diseases: protein cleavage and aggregation.
    Curr Opin Neurobiol. 1999 Oct;9(5):566-70 PMID: 10508741
  20. Sensing structural intermediates in bacterial flagellar assembly by export of a negative regulator.
    Science. 1993 Nov 19;262(5137):1277-80 PMID: 8235660
  21. Intrinsically disordered proteins in human diseases: introducing the D2 concept.
    Annu Rev Biophys. 2008;37:215-46 PMID: 18573080
  22. Structural polymorphism and multifunctionality of myelin basic protein.
    Biochemistry. 2009 Sep 1;48(34):8094-104 PMID: 19642704
  23. Is the unfolded state the Rosetta Stone of the protein folding problem?
    Biochem Biophys Res Commun. 2000 Sep 24;276(2):393-8 PMID: 11027486
  24. FoldUnfold: web server for the prediction of disordered regions in protein chain.
    Bioinformatics. 2006 Dec 1;22(23):2948-9 PMID: 17021161
  25. Natively unfolded proteins.
    Curr Opin Struct Biol. 2005 Feb;15(1):35-41 PMID: 15718131
  26. Calmodulin signaling: analysis and prediction of a disorder-dependent molecular recognition.
    Proteins. 2006 May 1;63(2):398-410 PMID: 16493654
  27. Functional and evolutionary analysis of alternatively spliced genes is consistent with an early eukaryotic origin of alternative splicing.
    BMC Evol Biol. 2007 Oct 04;7:188 PMID: 17916237
  28. A mouse model of episodic ataxia type-1.
    Nat Neurosci. 2003 Apr;6(4):378-83 PMID: 12612586
  29. Collective dynamics of 'small-world' networks.
    Nature. 1998 Jun 4;393(6684):440-2 PMID: 9623998
  30. The 'molten globule' state is involved in the translocation of proteins across membranes?
    FEBS Lett. 1988 Oct 10;238(2):231-4 PMID: 3049159
  31. Statistical properties predicted by the ball and chain model of channel inactivation.
    Biophys J. 1992 Dec;63(6):1579-85 PMID: 1283346
  32. ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins.
    Nucleic Acids Res. 2003 Jul 1;31(13):3625-30 PMID: 12824381
  33. ANCHOR: web server for predicting protein binding regions in disordered proteins.
    Bioinformatics. 2009 Oct 15;25(20):2745-6 PMID: 19717576
  34. Intrinsic disorder in the Protein Data Bank.
    J Biomol Struct Dyn. 2007 Feb;24(4):325-42 PMID: 17206849
  35. Prothymosin alpha: a biologically active protein with random coil conformation.
    Biochemistry. 1995 Oct 10;34(40):13211-8 PMID: 7548085
  36. A noncovalent peptide complex as a model for an early folding intermediate of cytochrome c.
    Biochemistry. 1993 Sep 28;32(38):10271-6 PMID: 8399155
  37. Evaluation of disorder predictions in CASP5.
    Proteins. 2003;53 Suppl 6:561-5 PMID: 14579346
  38. Pre-structured motifs in the natively unstructured preS1 surface antigen of hepatitis B virus.
    Protein Sci. 2007 Oct;16(10):2108-17 PMID: 17766372
  39. Lysozyme fibrillation: deep UV Raman spectroscopic characterization of protein structural transformation.
    Biopolymers. 2005 Sep;79(1):58-61 PMID: 15962278
  40. NORSp: Predictions of long regions without regular secondary structure.
    Nucleic Acids Res. 2003 Jul 1;31(13):3833-5 PMID: 12824431
  41. Protein-protein interactions and cancer: small molecules going in for the kill.
    Curr Opin Chem Biol. 2005 Jun;9(3):317-24 PMID: 15939335
  42. Another window into disordered protein function.
    Structure. 2007 Sep;15(9):1026-8 PMID: 17850741
  43. Predicting Protein Disorder for N-, C-, and Internal Regions.
    Genome Inform Ser Workshop Genome Inform. 1999;10:30-40 PMID: 11072340
  44. Intrinsic disorder is a common feature of hub proteins from four eukaryotic interactomes.
    PLoS Comput Biol. 2006 Aug 4;2(8):e100 PMID: 16884331
  45. Studies of the RNA degradosome-organizing domain of the Escherichia coli ribonuclease RNase E.
    J Mol Biol. 2004 Jul 23;340(5):965-79 PMID: 15236960
  46. Structure and stability of the molten globule state of guinea-pig alpha-lactalbumin: a hydrogen exchange study.
    Biochemistry. 1993 Jun 1;32(21):5681-91 PMID: 8504087
  47. Cdk-inhibitory activity and stability of p27Kip1 are directly regulated by oncogenic tyrosine kinases.
    Cell. 2007 Jan 26;128(2):269-80 PMID: 17254966
  48. Preformed structural elements feature in partner recognition by intrinsically unstructured proteins.
    J Mol Biol. 2004 May 14;338(5):1015-26 PMID: 15111064
  49. Biological activity and pathological implications of misfolded proteins.
    Cell Mol Life Sci. 1999 Jun;55(6-7):977-91 PMID: 10412375
  50. Disordered domains and high surface charge confer hubs with the ability to interact with multiple proteins in interaction networks.
    FEBS Lett. 2006 Apr 3;580(8):2041-5 PMID: 16542654
  51. Local structural elements in the mostly unstructured transcriptional activation domain of human p53.
    J Biol Chem. 2000 Sep 22;275(38):29426-32 PMID: 10884388
  52. Identification of a novel regulatory domain in Bcl-X(L) and Bcl-2.
    EMBO J. 1997 Mar 3;16(5):968-77 PMID: 9118958
  53. Role of hydration in the binding of lac repressor to DNA.
    J Biol Chem. 2002 Dec 27;277(52):50676-82 PMID: 12379649
  54. Selective inhibition of c-Myc/Max dimerization and DNA binding by small molecules.
    Chem Biol. 2006 Jul;13(7):745-51 PMID: 16873022
  55. DPROT: prediction of disordered proteins using evolutionary information.
    Amino Acids. 2008 Oct;35(3):599-605 PMID: 18425404
  56. Fluorescent, sequence-selective peptide detection by synthetic small molecules.
    Science. 1998 Feb 6;279(5352):851-3 PMID: 9452382
  57. Zn(2+)-mediated structure formation and compaction of the "natively unfolded" human prothymosin alpha.
    Biochem Biophys Res Commun. 2000 Jan 19;267(2):663-8 PMID: 10631119
  58. Protein disorder prediction by condensed PSSM considering propensity for order or disorder.
    BMC Bioinformatics. 2006 Jun 23;7:319 PMID: 16796745
  59. An investigation of the conformational changes of histone F2b by high resolution nuclear magnetic resonance.
    Eur J Biochem. 1970 Nov;17(1):151-9 PMID: 5530512
  60. Multiple independent binding sites for small-molecule inhibitors on the oncoprotein c-Myc.
    J Am Chem Soc. 2009 Jun 3;131(21):7390-401 PMID: 19432426
  61. Unfoldomics of human diseases: linking protein intrinsic disorder with diseases.
    BMC Genomics. 2009 Jul 07;10 Suppl 1:S7 PMID: 19594884
  62. Probing single-molecule protein conformational dynamics.
    Acc Chem Res. 2005 Jul;38(7):557-65 PMID: 16028890
  63. Fourteen and counting: unraveling trinucleotide repeat diseases.
    Hum Mol Genet. 2000 Apr 12;9(6):909-16 PMID: 10767314
  64. Structure of the MDM2 oncoprotein bound to the p53 tumor suppressor transactivation domain.
    Science. 1996 Nov 8;274(5289):948-53 PMID: 8875929
  65. Characterizing residual structure in disordered protein States using nuclear magnetic resonance.
    Methods Mol Biol. 2007;350:49-67 PMID: 16957317
  66. Insufficiently dehydrated hydrogen bonds as determinants of protein interactions.
    Proc Natl Acad Sci U S A. 2003 Jan 7;100(1):113-8 PMID: 12518060
  67. Analysis of ordered and disordered protein complexes reveals structural features discriminating between stable and unstable monomers.
    J Mol Biol. 2004 Aug 27;341(5):1327-41 PMID: 15321724
  68. Structural rationale for the coupled binding and unfolding of the c-Myc oncoprotein by small molecules.
    Chem Biol. 2008 Nov 24;15(11):1149-55 PMID: 19022175
  69. Atomic-level characterization of disordered protein ensembles.
    Curr Opin Struct Biol. 2007 Feb;17(1):3-14 PMID: 17250999
  70. Sequence Data Analysis for Long Disordered Regions Prediction in the Calcineurin Family.
    Genome Inform Ser Workshop Genome Inform. 1997;8:110-124 PMID: 11072311
  71. Identification of intrinsic order and disorder in the DNA repair protein XPA.
    Protein Sci. 2001 Mar;10(3):560-71 PMID: 11344324
  72. Small-molecule inhibitors of protein-protein interactions: progressing towards the dream.
    Nat Rev Drug Discov. 2004 Apr;3(4):301-17 PMID: 15060526
  73. Intrinsic disorder is a key characteristic in partners that bind 14-3-3 proteins.
    Proteins. 2006 Apr 1;63(1):35-42 PMID: 16444738
  74. The active form of the steroidogenic acute regulatory protein, StAR, appears to be a molten globule.
    Proc Natl Acad Sci U S A. 1999 Jun 22;96(13):7250-5 PMID: 10377400
  75. PrDOS: prediction of disordered protein regions from amino acid sequence.
    Nucleic Acids Res. 2007 Jul;35(Web Server issue):W460-4 PMID: 17567614
  76. A core-shell model of calcium phosphate nanoclusters stabilized by beta-casein phosphopeptides, derived from sedimentation equilibrium and small-angle X-ray and neutron-scattering measurements.
    Eur J Biochem. 1998 Feb 15;252(1):73-8 PMID: 9523714
  77. Intrinsically unstructured proteins and their functions.
    Nat Rev Mol Cell Biol. 2005 Mar;6(3):197-208 PMID: 15738986
  78. Part II: alpha-synuclein and its molecular pathophysiological role in neurodegenerative disease.
    Neuropharmacology. 2003 Jul;45(1):14-44 PMID: 12814657
  79. Recognition of enolase in the Escherichia coli RNA degradosome.
    J Mol Biol. 2006 Apr 21;358(1):8-15 PMID: 16516921
  80. Conformational constraints for amyloid fibrillation: the importance of being unfolded.
    Biochim Biophys Acta. 2004 May 6;1698(2):131-53 PMID: 15134647
  81. Abundance of intrinsic disorder in protein associated with cardiovascular disease.
    Biochemistry. 2006 Sep 5;45(35):10448-60 PMID: 16939197
  82. NMR spin relaxation methods for characterization of disorder and folding in proteins.
    J Mol Graph Model. 2001;19(1):3-12 PMID: 11381530
  83. Crystallography and protein-protein interactions: biological interfaces and crystal contacts.
    Biochem Soc Trans. 2008 Dec;36(Pt 6):1438-41 PMID: 19021571
  84. Functional anthology of intrinsic disorder. 2. Cellular components, domains, technical terms, developmental processes, and coding sequence diversities correlated with long disordered regions.
    J Proteome Res. 2007 May;6(5):1899-916 PMID: 17391015
  85. Positive selection on protein-length in the evolution of a primate sperm ion channel.
    Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12241-6 PMID: 14523237
  86. Flavors of protein disorder.
    Proteins. 2003 Sep 1;52(4):573-84 PMID: 12910457
  87. The transition of bovine trypsinogen to a trypsin-like state upon strong ligand binding. The refined crystal structures of the bovine trypsinogen-pancreatic trypsin inhibitor complex and of its ternary complex with Ile-Val at 1.9 A resolution.
    J Mol Biol. 1978 Jan 5;118(1):99-112 PMID: 625059
  88. Immunochemical studies of conformational alterations in bone gamma-carboxyglutamic acid containing protein.
    Biochemistry. 1984 Sep 25;23(20):4720-5 PMID: 6333895
  89. Splice variants: a homology modeling approach.
    Proteins. 2004 Feb 15;54(3):596-608 PMID: 14748006
  90. Intrinsic disorder and functional proteomics.
    Biophys J. 2007 Mar 1;92(5):1439-56 PMID: 17158572
  91. In vivo activation of the p53 pathway by small-molecule antagonists of MDM2.
    Science. 2004 Feb 6;303(5659):844-8 PMID: 14704432
  92. Intrinsically disordered proteins and their environment: effects of strong denaturants, temperature, pH, counter ions, membranes, binding partners, osmolytes, and macromolecular crowding.
    Protein J. 2009 Oct;28(7-8):305-25 PMID: 19768526
  93. The translation initiation factor eIF-4E binds to a common motif shared by the translation factor eIF-4 gamma and the translational repressors 4E-binding proteins.
    Mol Cell Biol. 1995 Sep;15(9):4990-7 PMID: 7651417
  94. A bimodal distribution of two distinct categories of intrinsically disordered structures with separate functions in FG nucleoporins.
    Mol Cell Proteomics. 2010 Oct;9(10):2205-24 PMID: 20368288
  95. Hen egg white lysozyme fibrillation: a deep-UV resonance Raman spectroscopic study.
    J Biophotonics. 2008 Aug;1(3):215-29 PMID: 19412971
  96. Further evidence on the equilibrium "pre-molten globule state": four-state guanidinium chloride-induced unfolding of carbonic anhydrase B at low temperature.
    J Mol Biol. 1996 Jan 12;255(1):215-28 PMID: 8568868
  97. Evidence of an associative intermediate on the myoglobin refolding pathway.
    Biophys J. 1993 Aug;65(2):912-7 PMID: 8218914
  98. Loopy proteins appear conserved in evolution.
    J Mol Biol. 2002 Sep 6;322(1):53-64 PMID: 12215414
  99. Shattuck lecture--neurodegenerative diseases and prions.
    N Engl J Med. 2001 May 17;344(20):1516-26 PMID: 11357156
  100. MeDor: a metaserver for predicting protein disorder.
    BMC Genomics. 2008 Sep 16;9 Suppl 2:S25 PMID: 18831791
  101. Mining alpha-helix-forming molecular recognition features with cross species sequence alignments.
    Biochemistry. 2007 Nov 27;46(47):13468-77 PMID: 17973494
  102. Functional anthology of intrinsic disorder. 3. Ligands, post-translational modifications, and diseases associated with intrinsically disordered proteins.
    J Proteome Res. 2007 May;6(5):1917-32 PMID: 17391016
  103. CDF it all: consensus prediction of intrinsically disordered proteins based on various cumulative distribution functions.
    FEBS Lett. 2009 May 6;583(9):1469-74 PMID: 19351533
  104. Study of the "molten globule" intermediate state in protein folding by a hydrophobic fluorescent probe.
    Biopolymers. 1991 Jan;31(1):119-28 PMID: 2025683
  105. Quantitative characterization of intrinsic disorder in polyglutamine: insights from analysis based on polymer theories.
    Biophys J. 2007 Sep 15;93(6):1923-37 PMID: 17526581
  106. Visualization of intrinsically disordered regions of proteins by high-speed atomic force microscopy.
    Chemphyschem. 2008 Sep 15;9(13):1859-66 PMID: 18698566
  107. Prediction and functional analysis of native disorder in proteins from the three kingdoms of life.
    J Mol Biol. 2004 Mar 26;337(3):635-45 PMID: 15019783
  108. Rational drug design via intrinsically disordered protein.
    Trends Biotechnol. 2006 Oct;24(10):435-42 PMID: 16876893
  109. Identification of Intrinsically Unstructured Proteins using hierarchical classifier.
    Int J Data Min Bioinform. 2008;2(2):121-33 PMID: 18767350
  110. Axin is a scaffold protein in TGF-beta signaling that promotes degradation of Smad7 by Arkadia.
    EMBO J. 2006 Apr 19;25(8):1646-58 PMID: 16601693
  111. All wrapped up.
    Nat Struct Biol. 1998 Apr;5(4):253-5 PMID: 9546210
  112. Natively unfolded C-terminal domain of caldesmon remains substantially unstructured after the effective binding to calmodulin.
    Proteins. 2003 Dec 1;53(4):855-62 PMID: 14635127
  113. Wiggle-predicting functionally flexible regions from primary sequence.
    PLoS Comput Biol. 2006 Jul 14;2(7):e90 PMID: 16839194
  114. Mechanisms of alternative pre-messenger RNA splicing.
    Annu Rev Biochem. 2003;72:291-336 PMID: 12626338
  115. Polyglutamine diseases: a transcription disorder?
    Cell Mol Life Sci. 2003 Jul;60(7):1427-39 PMID: 12943229
  116. Compact state of a protein molecule with pronounced small-scale mobility: bovine alpha-lactalbumin.
    Eur Biophys J. 1985;13(2):109-21 PMID: 3843533
  117. Beyond the Qs in the polyglutamine diseases.
    Genes Dev. 2001 Apr 15;15(8):925-32 PMID: 11316786
  118. Distinct and opposite activities of human terminal deoxynucleotidyltransferase splice variants.
    J Immunol. 2004 Sep 15;173(6):4009-19 PMID: 15356150
  119. Stability of proteins: small globular proteins.
    Adv Protein Chem. 1979;33:167-241 PMID: 44431
  120. Solution structure of native proteins with irregular folds from Raman optical activity.
    Biopolymers. 2001 Feb;58(2):138-51 PMID: 11093113
  121. Transcriptional activation. Acid blobs and negative noodles.
    Nature. 1988 May 19;333(6170):210-2 PMID: 3367995
  122. Inhibition of the p53-MDM2 interaction: targeting a protein-protein interface.
    Mol Cancer Res. 2004 Jan;2(1):20-8 PMID: 14757842
  123. Retraction.
    Biochemistry. 2007 Jul 10;46(27):8206 PMID: 17567051
  124. iPDA: integrated protein disorder analyzer.
    Nucleic Acids Res. 2007 Jul;35(Web Server issue):W465-72 PMID: 17553839
  125. Compact intermediate states in protein folding.
    Annu Rev Biophys Biomol Struct. 1995;24:495-522 PMID: 7663125
  126. The C-terminal half of the anti-sigma factor FlgM contains a dynamic equilibrium solution structure favoring helical conformations.
    Biochemistry. 1998 Jan 27;37(4):1076-82 PMID: 9454599
  127. Kinetic and equilibrium folding intermediates.
    Philos Trans R Soc Lond B Biol Sci. 1995 Apr 29;348(1323):35-41 PMID: 7770484
  128. Using Bayesian multinomial classifier to predict whether a given protein sequence is intrinsically disordered.
    J Theor Biol. 2008 Oct 21;254(4):799-803 PMID: 18611404
  129. Conformation-specific antibodies as probes of the gamma-carboxyglutamic acid-rich region of bovine prothrombin. Studies of metal-induced structural changes.
    J Biol Chem. 1979 Oct 10;254(19):9766-71 PMID: 90678
  130. Molecular genetics: unmasking polyglutamine triggers in neurodegenerative disease.
    Nat Rev Neurosci. 2000 Nov;1(2):109-15 PMID: 11252773
  131. Reduced amino acid alphabet is sufficient to accurately recognize intrinsically disordered protein.
    FEBS Lett. 2004 Oct 22;576(3):348-52 PMID: 15498561
  132. What does it mean to be natively unfolded?
    Eur J Biochem. 2002 Jan;269(1):2-12 PMID: 11784292
  133. Influence of sequence changes and environment on intrinsically disordered proteins.
    PLoS Comput Biol. 2009 Sep;5(9):e1000497 PMID: 19730682
  134. Why genes in pieces?
    Nature. 1978 Feb 9;271(5645):501 PMID: 622185
  135. Assessment of disorder predictions in CASP8.
    Proteins. 2009;77 Suppl 9:210-6 PMID: 19774619
  136. Investigating macromolecules inside cultured and injected cells by in-cell NMR spectroscopy.
    Nat Protoc. 2006;1(6):2701-9 PMID: 17406526
  137. A simple method for displaying the hydropathic character of a protein.
    J Mol Biol. 1982 May 5;157(1):105-32 PMID: 7108955
  138. Intrinsic structural disorder and sequence features of the cell cycle inhibitor p57Kip2.
    Proteins. 2002 Jan 1;46(1):1-7 PMID: 11746698
  139. Uncovering the unfoldome: enriching cell extracts for unstructured proteins by acid treatment.
    J Proteome Res. 2005 Sep-Oct;4(5):1610-8 PMID: 16212413
  140. Estimation of globular protein secondary structure from circular dichroism.
    Biochemistry. 1981 Jan 6;20(1):33-7 PMID: 7470476
  141. Probing the partly folded states of proteins by limited proteolysis.
    Fold Des. 1997;2(2):R17-26 PMID: 9135978
  142. Myelin basic protein-diverse conformational states of an intrinsically unstructured protein and its roles in myelin assembly and multiple sclerosis.
    Micron. 2004;35(7):503-42 PMID: 15219899
  143. Role of the molten globule state in protein folding.
    Adv Protein Chem. 2000;53:209-82 PMID: 10751946
  144. Inhibition of a protein-protein interaction between INI1 and c-Myc by small peptidomimetic molecules inspired by Helix-1 of c-Myc: identification of a new target of potential antineoplastic interest.
    FASEB J. 2007 Apr;21(4):1256-63 PMID: 17215484
  145. Protein misfolding, evolution and disease.
    Trends Biochem Sci. 1999 Sep;24(9):329-32 PMID: 10470028
  146. POODLE-S: web application for predicting protein disorder by using physicochemical features and reduced amino acid set of a position-specific scoring matrix.
    Bioinformatics. 2007 Sep 1;23(17):2337-8 PMID: 17599940
  147. Altered phosphorylation and intracellular distribution of a (CUG)n triplet repeat RNA-binding protein in patients with myotonic dystrophy and in myotonin protein kinase knockout mice.
    Proc Natl Acad Sci U S A. 1997 Nov 25;94(24):13221-6 PMID: 9371827
  148. What properties characterize the hub proteins of the protein-protein interaction network of Saccharomyces cerevisiae?
    Genome Biol. 2006;7(6):R45 PMID: 16780599
  149. Function and structure of inherently disordered proteins.
    Curr Opin Struct Biol. 2008 Dec;18(6):756-64 PMID: 18952168
  150. Comparing predictors of disordered protein.
    Genome Inform Ser Workshop Genome Inform. 2000;11:172-84 PMID: 11700598
  151. A novel two-dimensional electrophoresis technique for the identification of intrinsically unstructured proteins.
    Mol Cell Proteomics. 2006 Feb;5(2):265-73 PMID: 16223749
  152. Antagonists of protein-protein interactions.
    Chem Biol. 2000 Apr;7(4):R85-94 PMID: 10779412
  153. A retro-inverso peptide homologous to helix 1 of c-Myc is a potent and specific inhibitor of proliferation in different cellular systems.
    FASEB J. 2001 Jan;15(1):31-33 PMID: 11099487
  154. Improved disorder prediction by combination of orthogonal approaches.
    PLoS One. 2009;4(2):e4433 PMID: 19209228
  155. "Partly folded" state, a new equilibrium state of protein molecules: four-state guanidinium chloride-induced unfolding of beta-lactamase at low temperature.
    Biochemistry. 1994 Mar 15;33(10):2782-91 PMID: 8130190
  156. The application of circular dichroism to studies of protein folding and unfolding.
    Biochim Biophys Acta. 1997 Apr 4;1338(2):161-85 PMID: 9128135
  157. Protein disk of tobacco mosaic virus at 2.8 A resolution showing the interactions within and between subunits.
    Nature. 1978 Nov 23;276(5686):362-8 PMID: 19711551
  158. Intermediates in the folding reactions of small proteins.
    Annu Rev Biochem. 1990;59:631-60 PMID: 2197986
  159. A Y chromosome gene family with RNA-binding protein homology: candidates for the azoospermia factor AZF controlling human spermatogenesis.
    Cell. 1993 Dec 31;75(7):1287-95 PMID: 8269511
  160. Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm.
    J Mol Biol. 1999 Oct 22;293(2):321-31 PMID: 10550212
  161. Classification of scale-free networks.
    Proc Natl Acad Sci U S A. 2002 Oct 1;99(20):12583-8 PMID: 12239345
  162. Prediction of disordered regions in proteins based on the meta approach.
    Bioinformatics. 2008 Jun 1;24(11):1344-8 PMID: 18426805
  163. Osmotic stress for the direct measurement of intermolecular forces.
    Methods Enzymol. 1986;127:400-16 PMID: 3736427
  164. Biophysical characterization of intrinsically disordered proteins.
    Curr Opin Struct Biol. 2009 Feb;19(1):23-30 PMID: 19162471
  165. Metal-triggered structural transformations, aggregation, and fibrillation of human alpha-synuclein. A possible molecular NK between Parkinson's disease and heavy metal exposure.
    J Biol Chem. 2001 Nov 23;276(47):44284-96 PMID: 11553618
  166. Polyglutamine expansion neurodegenerative disease.
    Brain Res Bull. 2001 Oct-Nov 1;56(3-4):161-3 PMID: 11719245
  167. High-resolution macromolecular NMR spectroscopy inside living cells.
    J Am Chem Soc. 2001 Mar 14;123(10):2446-7 PMID: 11456903
  168. Alternative splicing: increasing diversity in the proteomic world.
    Trends Genet. 2001 Feb;17(2):100-7 PMID: 11173120
  169. Macromolecules and water: probing with osmotic stress.
    Methods Enzymol. 1995;259:43-94 PMID: 8538466
  170. Alzheimer's disease and Down's syndrome: sharing of a unique cerebrovascular amyloid fibril protein.
    Biochem Biophys Res Commun. 1984 Aug 16;122(3):1131-5 PMID: 6236805
  171. The interface of protein-protein complexes: analysis of contacts and prediction of interactions.
    Cell Mol Life Sci. 2008 Apr;65(7-8):1059-72 PMID: 18080088
  172. FlgM gains structure in living cells.
    Proc Natl Acad Sci U S A. 2002 Oct 1;99(20):12681-4 PMID: 12271132
  173. Alternative splicing in the N-terminus of Alzheimer's presenilin 1.
    Neurogenetics. 2004 Dec;5(4):223-7 PMID: 15480879
  174. Discovery of novel Myc-Max heterodimer disruptors with a three-dimensional pharmacophore model.
    J Med Chem. 2009 Mar 12;52(5):1247-50 PMID: 19215087
  175. Formation of a yeast SNARE complex is accompanied by significant structural changes.
    FEBS Lett. 1997 Sep 22;415(1):49-55 PMID: 9326367
  176. Aberrant and alternative splicing in cancer.
    Cancer Res. 2004 Nov 1;64(21):7647-54 PMID: 15520162
  177. Loop and subdomain movements in the mechanism of Escherichia coli dihydrofolate reductase: crystallographic evidence.
    Biochemistry. 1997 Jan 21;36(3):586-603 PMID: 9012674
  178. Is myelin basic protein crystallizable?
    Neurochem Res. 1992 Feb;17(2):157-66 PMID: 1371603
  179. Discovery of potent antagonists of the interaction between human double minute 2 and tumor suppressor p53.
    J Med Chem. 2000 Aug 24;43(17):3205-8 PMID: 10966738
  180. A68: a major subunit of paired helical filaments and derivatized forms of normal Tau.
    Science. 1991 Feb 8;251(4994):675-8 PMID: 1899488
  181. The interplay between structure and function in intrinsically unstructured proteins.
    FEBS Lett. 2005 Jun 13;579(15):3346-54 PMID: 15943980
  182. The SLiMDisc server: short, linear motif discovery in proteins.
    Nucleic Acids Res. 2007 Jul;35(Web Server issue):W455-9 PMID: 17576682
  183. Anion-induced folding of Staphylococcal nuclease: characterization of multiple equilibrium partially folded intermediates.
    J Mol Biol. 1998 May 15;278(4):879-94 PMID: 9614949
  184. Characterizing the conformational ensemble of monomeric polyglutamine.
    Proteins. 2006 May 1;63(2):297-311 PMID: 16299774
  185. High levels of structural disorder in scaffold proteins as exemplified by a novel neuronal protein, CASK-interactive protein1.
    FEBS J. 2009 Jul;276(14):3744-56 PMID: 19523119
  186. Disorder and sequence repeats in hub proteins and their implications for network evolution.
    J Proteome Res. 2006 Nov;5(11):2985-95 PMID: 17081050
  187. Scale-free networks.
    Sci Am. 2003 May;288(5):60-9 PMID: 12701331
  188. Prediction of disordered regions in proteins from position specific score matrices.
    Proteins. 2003;53 Suppl 6:573-8 PMID: 14579348
  189. To be folded or to be unfolded?
    Protein Sci. 2004 Nov;13(11):2871-7 PMID: 15498936
  190. Application of a Theory of Enzyme Specificity to Protein Synthesis.
    Proc Natl Acad Sci U S A. 1958 Feb;44(2):98-104 PMID: 16590179
  191. Tight regulation of unstructured proteins: from transcript synthesis to protein degradation.
    Science. 2008 Nov 28;322(5906):1365-8 PMID: 19039133
  192. Exploiting heterogeneous sequence properties improves prediction of protein disorder.
    Proteins. 2005;61 Suppl 7:176-82 PMID: 16187360
  193. Identification of small molecule binding sites within proteins using phage display technology.
    Comb Chem High Throughput Screen. 2001 Nov;4(7):553-72 PMID: 11562259
  194. How did alternative splicing evolve?
    Nat Rev Genet. 2004 Oct;5(10):773-82 PMID: 15510168
  195. Structure of myoglobin: A three-dimensional Fourier synthesis at 2 A. resolution.
    Nature. 1960 Feb 13;185(4711):422-7 PMID: 18990802
  196. Intrinsic disorder in cell-signaling and cancer-associated proteins.
    J Mol Biol. 2002 Oct 25;323(3):573-84 PMID: 12381310
  197. Evidence for a partially folded intermediate in alpha-synuclein fibril formation.
    J Biol Chem. 2001 Apr 6;276(14):10737-44 PMID: 11152691
  198. The C-terminal half of the anti-sigma factor, FlgM, becomes structured when bound to its target, sigma 28.
    Nat Struct Biol. 1997 Apr;4(4):285-91 PMID: 9095196
  199. NMR structure of an archaeal homologue of ribonuclease P protein Rpp29.
    Biochemistry. 2003 Nov 25;42(46):13541-50 PMID: 14622001
  200. The interaction of eIF4E with 4E-BP1 is an induced fit to a completely disordered protein.
    Protein Sci. 1998 Jul;7(7):1639-42 PMID: 9684899
  201. Specific intermediates in the folding reactions of small proteins and the mechanism of protein folding.
    Annu Rev Biochem. 1982;51:459-89 PMID: 6287919
  202. Ability of a beta-casein phosphopeptide to modulate the precipitation of calcium phosphate by forming amorphous dicalcium phosphate nanoclusters.
    Biochem J. 1996 Mar 15;314 ( Pt 3):1035-9 PMID: 8615755
  203. Pathogenic mutations shift the equilibria of alpha-synuclein single molecules towards structured conformers.
    Chembiochem. 2009 Jan 5;10(1):176-83 PMID: 19067456
  204. The unfoldomics decade: an update on intrinsically disordered proteins.
    BMC Genomics. 2008 Sep 16;9 Suppl 2:S1 PMID: 18831774
  205. Coupling of folding and binding for unstructured proteins.
    Curr Opin Struct Biol. 2002 Feb;12(1):54-60 PMID: 11839490
  206. Structural studies of tau protein and Alzheimer paired helical filaments show no evidence for beta-structure.
    J Biol Chem. 1994 Sep 30;269(39):24290-7 PMID: 7929085
  207. Sequence complexity of disordered protein.
    Proteins. 2001 Jan 1;42(1):38-48 PMID: 11093259
  208. A natively unfolded yeast prion monomer adopts an ensemble of collapsed and rapidly fluctuating structures.
    Proc Natl Acad Sci U S A. 2007 Feb 20;104(8):2649-54 PMID: 17299036
  209. p27 binds cyclin-CDK complexes through a sequential mechanism involving binding-induced protein folding.
    Nat Struct Mol Biol. 2004 Apr;11(4):358-64 PMID: 15024385
  210. Predicting intrinsic disorder in proteins: an overview.
    Cell Res. 2009 Aug;19(8):929-49 PMID: 19597536
  211. IUPred: web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content.
    Bioinformatics. 2005 Aug 15;21(16):3433-4 PMID: 15955779
  212. Non-globular domains in protein sequences: automated segmentation using complexity measures.
    Comput Chem. 1994 Sep;18(3):269-85 PMID: 7952898
  213. VaZyMolO: a tool to define and classify modularity in viral proteins.
    J Gen Virol. 2005 Mar;86(Pt 3):743-749 PMID: 15722535
  214. The protein trinity--linking function and disorder.
    Nat Biotechnol. 2001 Sep;19(9):805-6 PMID: 11533628
  215. Folding intermediates are involved in genetic diseases?
    FEBS Lett. 1995 Feb 6;359(1):6-8 PMID: 7531653
  216. The conformation properties of proteins in solution.
    Biol Rev Camb Philos Soc. 1979 Nov;54(4):389-437 PMID: 230863
  217. Small-molecule antagonists of p53-MDM2 binding: research tools and potential therapeutics.
    Cell Cycle. 2004 Apr;3(4):419-21 PMID: 15004525
  218. Alzheimer's disease in Down's syndrome: clinicopathologic studies.
    Neurology. 1985 Jul;35(7):957-61 PMID: 3159974
  219. Proteomic studies of the intrinsically unstructured mammalian proteome.
    J Proteome Res. 2006 Oct;5(10):2839-48 PMID: 17022655
  220. [How many molten globules states exist?].
    Biofizika. 1998 May-Jun;43(3):416-21 PMID: 9702331
  221. Use of fast protein size-exclusion liquid chromatography to study the unfolding of proteins which denature through the molten globule.
    Biochemistry. 1993 Dec 7;32(48):13288-98 PMID: 8241185
  222. Effect of natural ligands on the structural properties and conformational stability of proteins.
    Biochemistry (Mosc). 1998 Apr;63(4):420-33 PMID: 9556525
  223. High-resolution three-dimensional structure of horse heart cytochrome c.
    J Mol Biol. 1990 Jul 20;214(2):585-95 PMID: 2166170
  224. Structural genomics analysis of alternative splicing and application to isoform structure modeling.
    Proc Natl Acad Sci U S A. 2005 Dec 27;102(52):18920-5 PMID: 16354838
  225. Emergence of scaling in random networks
    Science. 1999 Oct 15;286(5439):509-12 PMID: 10521342
  226. Differential dynamical effects of macromolecular crowding on an intrinsically disordered protein and a globular protein: implications for in-cell NMR spectroscopy.
    J Am Chem Soc. 2008 May 21;130(20):6310-1 PMID: 18419123
  227. Structural basis for recruitment of glycogen synthase kinase 3beta to the axin-APC scaffold complex.
    EMBO J. 2003 Feb 3;22(3):494-501 PMID: 12554650
  228. All-or-none solvent-induced transitions between native, molten globule and unfolded states in globular proteins.
    Fold Des. 1996;1(2):117-22 PMID: 9079371
  229. Neuronal origin of a cerebral amyloid: neurofibrillary tangles of Alzheimer's disease contain the same protein as the amyloid of plaque cores and blood vessels.
    EMBO J. 1985 Nov;4(11):2757-63 PMID: 4065091
  230. Intrinsic disorder in pathogenic and non-pathogenic microbes: discovering and analyzing the unfoldomes of early-branching eukaryotes.
    Mol Biosyst. 2008 Apr;4(4):328-40 PMID: 18354786
  231. Osmotic stress, crowding, preferential hydration, and binding: A comparison of perspectives.
    Proc Natl Acad Sci U S A. 2000 Apr 11;97(8):3987-92 PMID: 10760270
  232. Ion channels and epilepsy.
    Am J Med Genet. 2001 Summer;106(2):146-59 PMID: 11579435
  233. Structural description of acid-denatured cytochrome c by hydrogen exchange and 2D NMR.
    Biochemistry. 1990 Nov 20;29(46):10433-7 PMID: 2176867
  234. A credit-card library approach for disrupting protein-protein interactions.
    Bioorg Med Chem. 2006 Apr 15;14(8):2660-73 PMID: 16384710
  235. The importance of intrinsic disorder for protein phosphorylation.
    Nucleic Acids Res. 2004 Feb 11;32(3):1037-49 PMID: 14960716
  236. The kinetics of helix unfolding of an azobenzene cross-linked peptide probed by nanosecond time-resolved optical rotatory dispersion.
    J Am Chem Soc. 2003 Oct 15;125(41):12443-9 PMID: 14531687
  237. Alpha-Lactalbumin: compact state with fluctuating tertiary structure?
    FEBS Lett. 1981 Dec 28;136(2):311-5 PMID: 7327267
  238. Circular dichroism.
    Methods Enzymol. 1995;246:34-71 PMID: 7538625
  239. Atomistic simulations of the effects of polyglutamine chain length and solvent quality on conformational equilibria and spontaneous homodimerization.
    J Mol Biol. 2008 Dec 5;384(1):279-97 PMID: 18824003
  240. Native-like secondary structure of molten globules.
    Biochim Biophys Acta. 2002 Jan 31;1594(1):168-77 PMID: 11825619
  241. NMR observation of Tau in Xenopus oocytes.
    J Magn Reson. 2008 Jun;192(2):252-7 PMID: 18378475
  242. Identical short peptide sequences in unrelated proteins can have different conformations: a testing ground for theories of immune recognition.
    Proc Natl Acad Sci U S A. 1985 Aug;82(16):5255-9 PMID: 2410917
  243. Targeting the p53-MDM2 interaction to treat cancer.
    Br J Cancer. 2004 Oct 18;91(8):1415-9 PMID: 15452548
  244. Spritz: a server for the prediction of intrinsically disordered regions in protein sequences using kernel machines.
    Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W164-8 PMID: 16844983
  245. Intrinsic disorder prediction from the analysis of multiple protein fold recognition models.
    Bioinformatics. 2008 Aug 15;24(16):1798-804 PMID: 18579567
  246. Low molecular weight inhibitors of Myc-Max interaction and function.
    Oncogene. 2003 Sep 18;22(40):6151-9 PMID: 13679853
  247. Amyloid fibrillogenesis: themes and variations.
    Curr Opin Struct Biol. 2000 Feb;10(1):60-8 PMID: 10679462
  248. Optimizing long intrinsic disorder predictors with protein evolutionary information.
    J Bioinform Comput Biol. 2005 Feb;3(1):35-60 PMID: 15751111
  249. NMR structural studies of glutathione S-transferase.
    Cell Mol Life Sci. 1998 Apr;54(4):359-62 PMID: 9614973
  250. Intrinsic disorder in scaffold proteins: getting more from less.
    Prog Biophys Mol Biol. 2008 Sep;98(1):85-106 PMID: 18619997
  251. Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays.
    Science. 2003 Dec 19;302(5653):2141-4 PMID: 14684825
  252. The Protein Data Bank: a computer-based archival file for macromolecular structures.
    J Mol Biol. 1977 May 25;112(3):535-42 PMID: 875032
  253. TOP-IDP-scale: a new amino acid scale measuring propensity for intrinsic disorder.
    Protein Pept Lett. 2008;15(9):956-63 PMID: 18991772
  254. Large-scale analysis of thermostable, mammalian proteins provides insights into the intrinsically disordered proteome.
    J Proteome Res. 2009 Jan;8(1):211-26 PMID: 19067583
  255. The conformation of horse heart apocytochrome c.
    J Biol Chem. 1972 Dec 25;247(24):8074-7 PMID: 4344990
  256. Polymeric aspects of protein folding: a brief overview.
    Protein Pept Lett. 2003 Jun;10(3):239-45 PMID: 12871143
  257. Origins of protein denatured state compactness and hydrophobic clustering in aqueous urea: inferences from nonpolar potentials of mean force.
    Proteins. 2002 Dec 1;49(4):560-6 PMID: 12402364
  258. Alternative splicing in concert with protein intrinsic disorder enables increased functional diversity in multicellular organisms.
    Proc Natl Acad Sci U S A. 2006 May 30;103(22):8390-5 PMID: 16717195
  259. Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions.
    J Proteome Res. 2007 May;6(5):1882-98 PMID: 17391014
  260. Large-scale prediction of long disordered regions in proteins using random forests.
    BMC Bioinformatics. 2009 Jan 07;10:8 PMID: 19128505
  261. Effect of zinc and temperature on the conformation of the gamma subunit of retinal phosphodiesterase: a natively unfolded protein.
    J Proteome Res. 2002 Mar-Apr;1(2):149-59 PMID: 12643535
  262. SLiMFinder: a probabilistic method for identifying over-represented, convergently evolved, short linear motifs in proteins.
    PLoS One. 2007 Oct 03;2(10):e967 PMID: 17912346
  263. The concept of a random coil. Residual structure in peptides and denatured proteins.
    Fold Des. 1996;1(5):R95-106 PMID: 9080177
  264. Functional significance of flexibility in proteins.
    Biopolymers. 1983 Jan;22(1):261-79 PMID: 6673759
  265. Protein globularization during folding. A study by synchrotron small-angle X-ray scattering.
    J Mol Biol. 1996 Oct 4;262(4):559-74 PMID: 8893863
  266. The pairwise energy content estimated from amino acid composition discriminates between folded and intrinsically unstructured proteins.
    J Mol Biol. 2005 Apr 8;347(4):827-39 PMID: 15769473
  267. Assessing protein disorder and induced folding.
    Proteins. 2006 Jan 1;62(1):24-45 PMID: 16287116
  268. Differential expression of alpha-synuclein, parkin, and synphilin-1 isoforms in Lewy body disease.
    Neurogenetics. 2008 Jul;9(3):163-72 PMID: 18335262
  269. Protein disorder and the evolution of molecular recognition: theory, predictions and observations.
    Pac Symp Biocomput. 1998;:473-84 PMID: 9697205
  270. A multiparametric approach to studies of self-organization of globular proteins
    Biochemistry (Mosc). 1999 Mar;64(3):250-66 PMID: 10205295
  271. On the nature of the structural change of the colicin E1 channel peptide necessary for its translocation-competent state.
    Biochemistry. 1990 Jun 19;29(24):5829-36 PMID: 2200517
  272. FoldIndex: a simple tool to predict whether a given protein sequence is intrinsically unfolded.
    Bioinformatics. 2005 Aug 15;21(16):3435-8 PMID: 15955783
  273. Small-molecule perturbation of competing interactions between c-Myc and Max.
    Bioorg Med Chem Lett. 2009 Feb 1;19(3):807-10 PMID: 19114306
  274. Structural characterization of the molten globule of alpha-lactalbumin by solution X-ray scattering.
    Protein Sci. 1997 Feb;6(2):422-30 PMID: 9041645
  275. Keeping dry and crossing membranes.
    Nat Biotechnol. 2004 Sep;22(9):1081-4 PMID: 15340471
  276. A small synthetic peptide, which inhibits the p53-hdm2 interaction, stimulates the p53 pathway in tumour cell lines.
    J Mol Biol. 2000 May 26;299(1):245-53 PMID: 10860736
  277. FACT facilitates transcription-dependent nucleosome alteration.
    Science. 2003 Aug 22;301(5636):1090-3 PMID: 12934006
  278. Protein structure protection commits gene expression patterns.
    Genome Biol. 2008;9(7):R107 PMID: 18606003
  279. NMR structure of inactivation gates from mammalian voltage-dependent potassium channels.
    Nature. 1997 Jan 16;385(6613):272-5 PMID: 9000078
  280. Three-dimensional structure of an antigen-antibody complex at 6 A resolution.
    Nature. 1985 Jan 10-18;313(5998):156-8 PMID: 3965976
  281. Natively unfolded human prothymosin alpha adopts partially folded collapsed conformation at acidic pH.
    Biochemistry. 1999 Nov 9;38(45):15009-16 PMID: 10555983
  282. Close encounters: why unstructured, polymeric domains can increase rates of specific macromolecular association.
    Trends Biochem Sci. 1993 May;18(5):181-6 PMID: 8328018
  283. A protein-chameleon: conformational plasticity of alpha-synuclein, a disordered protein involved in neurodegenerative disorders.
    J Biomol Struct Dyn. 2003 Oct;21(2):211-34 PMID: 12956606
  284. Biophysical and molecular mechanisms of Shaker potassium channel inactivation.
    Science. 1990 Oct 26;250(4980):533-8 PMID: 2122519
  285. The conformational mobility of proteins and its functional significance.
    Biochem Soc Trans. 1978;6(6):1123-6 PMID: 217769
  286. Predicting Binding Regions within Disordered Proteins.
    Genome Inform Ser Workshop Genome Inform. 1999;10:41-50 PMID: 11072341
  287. Molecular cloning of cDNA encoding an unrecognized component of amyloid in Alzheimer disease.
    Proc Natl Acad Sci U S A. 1993 Dec 1;90(23):11282-6 PMID: 8248242
  288. Structural studies of p21Waf1/Cip1/Sdi1 in the free and Cdk2-bound state: conformational disorder mediates binding diversity.
    Proc Natl Acad Sci U S A. 1996 Oct 15;93(21):11504-9 PMID: 8876165
  289. Small-molecule antagonists of Myc/Max dimerization inhibit Myc-induced transformation of chicken embryo fibroblasts.
    Proc Natl Acad Sci U S A. 2002 Mar 19;99(6):3830-5 PMID: 11891322
  290. A three-dimensional model of the myoglobin molecule obtained by x-ray analysis.
    Nature. 1958 Mar 8;181(4610):662-6 PMID: 13517261
  291. Molten globule and protein folding.
    Adv Protein Chem. 1995;47:83-229 PMID: 8561052
  292. DARPP-32, a dopamine- and adenosine 3':5'-monophosphate-regulated phosphoprotein enriched in dopamine-innervated brain regions. II. Purification and characterization of the phosphoprotein from bovine caudate nucleus.
    J Neurosci. 1984 Jan;4(1):99-110 PMID: 6319628
  293. Showing your ID: intrinsic disorder as an ID for recognition, regulation and cell signaling.
    J Mol Recognit. 2005 Sep-Oct;18(5):343-84 PMID: 16094605
  294. The expanded denatured state: an ensemble of conformations trapped in a locally encoded topological space.
    Adv Protein Chem. 2002;62:1-23 PMID: 12418099
  295. Identification and functions of usefully disordered proteins.
    Adv Protein Chem. 2002;62:25-49 PMID: 12418100
  296. Activation and activities of the p53 tumour suppressor protein.
    Br J Cancer. 2001 Dec 14;85(12):1813-23 PMID: 11747320
  297. Roles of partly unfolded conformations in macromolecular self-assembly.
    Genes Cells. 2001 Jan;6(1):1-12 PMID: 11168592
  298. Single-molecule conformational dynamics of fluctuating noncovalent DNA-protein interactions in DNA damage recognition.
    J Am Chem Soc. 2001 Sep 19;123(37):9184-5 PMID: 11552836
  299. Coupled folding and binding with alpha-helix-forming molecular recognition elements.
    Biochemistry. 2005 Sep 20;44(37):12454-70 PMID: 16156658
  300. Systematic study on crystal-contact engineering of diphthine synthase: influence of mutations at crystal-packing regions on X-ray diffraction quality.
    Acta Crystallogr D Biol Crystallogr. 2008 Oct;64(Pt 10):1020-33 PMID: 18931409
  301. Native and non-native conformation-specific antibodies directed to the loop region of hen egg-white lysozyme.
    J Biochem. 1985 Oct;98(4):949-62 PMID: 2416741
  302. Adenovirus amazes at Cold Spring Harbor.
    Nature. 1977 Jul 14;268(5616):101-4 PMID: 593301
  303. Biochemistry. Controlled chaos.
    Science. 2008 Nov 28;322(5906):1340-1 PMID: 19039128
  304. Mechanisms of reversible protein glutathionylation in redox signaling and oxidative stress.
    Curr Opin Pharmacol. 2007 Aug;7(4):381-91 PMID: 17662654
  305. Length-dependent prediction of protein intrinsic disorder.
    BMC Bioinformatics. 2006 Apr 17;7:208 PMID: 16618368
  306. OnD-CRF: predicting order and disorder in proteins using [corrected] conditional random fields.
    Bioinformatics. 2008 Jun 1;24(11):1401-2 PMID: 18430742
  307. RONN: the bio-basis function neural network technique applied to the detection of natively disordered regions in proteins.
    Bioinformatics. 2005 Aug 15;21(16):3369-76 PMID: 15947016
  308. The molten globule is a third thermodynamical state of protein molecules.
    FEBS Lett. 1994 Mar 14;341(1):15-8 PMID: 8137915
  309. Crystal structures of human calcineurin and the human FKBP12-FK506-calcineurin complex.
    Nature. 1995 Dec 7;378(6557):641-4 PMID: 8524402
  310. Zinc binding properties of the DNA binding domain of the 1,25-dihydroxyvitamin D3 receptor.
    Biochemistry. 1997 Aug 26;36(34):10482-91 PMID: 9265628
  311. Predicting mostly disordered proteins by using structure-unknown protein data.
    BMC Bioinformatics. 2007 Mar 06;8:78 PMID: 17338828
  312. Sulfur and selenium: the role of oxidation state in protein structure and function.
    Angew Chem Int Ed Engl. 2003 Oct 13;42(39):4742-58 PMID: 14562341
  313. The alternative conformations of amyloidogenic proteins and their multi-step assembly pathways.
    Curr Opin Struct Biol. 1998 Feb;8(1):101-6 PMID: 9519302
  314. Short Linear Motifs recognized by SH2, SH3 and Ser/Thr Kinase domains are conserved in disordered protein regions.
    BMC Genomics. 2008 Sep 16;9 Suppl 2:S26 PMID: 18831792
  315. p53 mutations in human cancers.
    Science. 1991 Jul 5;253(5015):49-53 PMID: 1905840
  316. Flexible nets. The roles of intrinsic disorder in protein interaction networks.
    FEBS J. 2005 Oct;272(20):5129-48 PMID: 16218947
  317. Intrinsic protein disorder in complete genomes.
    Genome Inform Ser Workshop Genome Inform. 2000;11:161-71 PMID: 11700597
  318. The role of structural disorder in the function of RNA and protein chaperones.
    FASEB J. 2004 Aug;18(11):1169-75 PMID: 15284216
  319. On the role of heme in the formation of the structure of cytochrome c.
    J Biol Chem. 1973 May 10;248(9):3188-95 PMID: 4349479
  320. Lethality and centrality in protein networks.
    Nature. 2001 May 3;411(6833):41-2 PMID: 11333967
  321. NACP, a protein implicated in Alzheimer's disease and learning, is natively unfolded.
    Biochemistry. 1996 Oct 29;35(43):13709-15 PMID: 8901511
  322. Characterization of a partly folded protein by NMR methods: studies on the molten globule state of guinea pig alpha-lactalbumin.
    Biochemistry. 1989 Jan 10;28(1):7-13 PMID: 2706269
  323. How Emil Fischer was led to the lock and key concept for enzyme specificity.
    Adv Carbohydr Chem Biochem. 1994;50:1-20 PMID: 7942253
  324. Improved low molecular weight Myc-Max inhibitors.
    Mol Cancer Ther. 2007 Sep;6(9):2399-408 PMID: 17876039
  325. Restoration of inactivation in mutants of Shaker potassium channels by a peptide derived from ShB.
    Science. 1990 Oct 26;250(4980):568-71 PMID: 2122520
  326. Signal transduction via unstructured protein conduits.
    Nat Chem Biol. 2008 Apr;4(4):229-30 PMID: 18347590
  327. Target enzyme recognition by calmodulin: 2.4 A structure of a calmodulin-peptide complex.
    Science. 1992 Aug 28;257(5074):1251-5 PMID: 1519061
  328. The molten globule state as a clue for understanding the folding and cooperativity of globular-protein structure.
    Proteins. 1989;6(2):87-103 PMID: 2695928
  329. Secondary structure of proteins through circular dichroism spectroscopy.
    Annu Rev Biophys Biophys Chem. 1988;17:145-66 PMID: 3293583
  330. Why are "natively unfolded" proteins unstructured under physiologic conditions?
    Proteins. 2000 Nov 15;41(3):415-27 PMID: 11025552
  331. Protein dynamics in living cells.
    Biochemistry. 2005 Jul 5;44(26):9275-9 PMID: 15981993
  332. Intrinsic disorder in proteins associated with neurodegenerative diseases.
    Front Biosci (Landmark Ed). 2009 Jun 01;14:5188-238 PMID: 19482612
  333. Single-molecule study of protein-protein and protein-DNA interaction dynamics.
    Methods Mol Biol. 2005;305:385-414 PMID: 15940008
  334. Natively unstructured regions in proteins identified from contact predictions.
    Bioinformatics. 2007 Sep 15;23(18):2376-84 PMID: 17709338
  335. Identification and characterization of a new alpha-synuclein isoform and its role in Lewy body diseases.
    Neurogenetics. 2008 Feb;9(1):15-23 PMID: 17955272
  336. Predicting Disordered Regions from Amino Acid Sequence: Common Themes Despite Differing Structural Characterization.
    Genome Inform Ser Workshop Genome Inform. 1998;9:201-213 PMID: 11072336
  337. Structure of hen egg-white lysozyme. A three-dimensional Fourier synthesis at 2 Angstrom resolution.
    Nature. 1965 May 22;206(4986):757-61 PMID: 5891407
  338. EST comparison indicates 38% of human mRNAs contain possible alternative splice forms.
    FEBS Lett. 2000 May 26;474(1):83-6 PMID: 10828456
  339. Intrinsic disorder in yeast transcriptional regulatory network.
    Proteins. 2007 Aug 15;68(3):602-5 PMID: 17510967
  340. Intrinsically unstructured proteins.
    Trends Biochem Sci. 2002 Oct;27(10):527-33 PMID: 12368089
  341. Macromolecular crowding in the Escherichia coli periplasm maintains alpha-synuclein disorder.
    J Mol Biol. 2006 Feb 3;355(5):893-7 PMID: 16343531
  342. In-cell NMR spectroscopy.
    Methods Enzymol. 2005;394:17-41 PMID: 15808216
  343. Intrinsic structural disorder of the C-terminal activation domain from the bZIP transcription factor Fos.
    Biochemistry. 2000 Mar 14;39(10):2708-13 PMID: 10704222
  344. Local flexibility in molecular function paradigm.
    Mol Cell Proteomics. 2006 Jul;5(7):1212-23 PMID: 16571897
  345. Functional consequences of preorganized helical structure in the intrinsically disordered cell-cycle inhibitor p27(Kip1).
    Biochemistry. 2002 Jan 22;41(3):752-9 PMID: 11790096
  346. Comparing and combining predictors of mostly disordered proteins.
    Biochemistry. 2005 Feb 15;44(6):1989-2000 PMID: 15697224
  347. Metal ion binding to dog osteocalcin studied by 1H NMR spectroscopy.
    Biochemistry. 1993 Oct 26;32(42):11352-62 PMID: 8218200
  348. Analysis of molecular recognition features (MoRFs).
    J Mol Biol. 2006 Oct 6;362(5):1043-59 PMID: 16935303
  349. Alpha-synuclein binds large unilamellar vesicles as an extended helix.
    Biochemistry. 2009 Mar 24;48(11):2304-6 PMID: 19220042
  350. Local structural disorder imparts plasticity on linear motifs.
    Bioinformatics. 2007 Apr 15;23(8):950-6 PMID: 17387114
  351. GlobPlot: Exploring protein sequences for globularity and disorder.
    Nucleic Acids Res. 2003 Jul 1;31(13):3701-8 PMID: 12824398
  352. Cytosol has a small effect on protein backbone dynamics.
    Biochemistry. 2006 Aug 22;45(33):10085-91 PMID: 16906766
  353. Prediction of unfolded segments in a protein sequence based on amino acid composition.
    Bioinformatics. 2005 May 1;21(9):1891-900 PMID: 15657106
  354. Conformational equilibria in monomeric alpha-synuclein at the single-molecule level.
    PLoS Biol. 2008 Jan;6(1):e6 PMID: 18198943
  355. Aberrant mobility phenomena of the DNA repair protein XPA.
    Protein Sci. 2001 Jul;10(7):1353-62 PMID: 11420437
  356. Structural and dynamic characterization of partially folded states of apomyoglobin and implications for protein folding.
    Nat Struct Biol. 1998 Feb;5(2):148-55 PMID: 9461081
  357. Quantitative determination of the conformational properties of partially folded and intrinsically disordered proteins using NMR dipolar couplings.
    Structure. 2009 Sep 9;17(9):1169-85 PMID: 19748338
  358. Protein flexibility and intrinsic disorder.
    Protein Sci. 2004 Jan;13(1):71-80 PMID: 14691223
  359. Evolutionary rate heterogeneity in proteins with long disordered regions.
    J Mol Evol. 2002 Jul;55(1):104-10 PMID: 12165847
  360. Thousands of proteins likely to have long disordered regions.
    Pac Symp Biocomput. 1998;:437-48 PMID: 9697202
  361. Alzheimer's disease-like phosphorylation of the microtubule-associated protein tau by glycogen synthase kinase-3 in transfected mammalian cells.
    Curr Biol. 1994 Dec 1;4(12):1077-86 PMID: 7704571
  362. The human disease network.
    Proc Natl Acad Sci U S A. 2007 May 22;104(21):8685-90 PMID: 17502601
  363. In-cell NMR spectroscopy.
    Biochemistry. 2001 Dec 4;40(48):14317-23 PMID: 11724542
  364. TC-1 is a novel tumorigenic and natively disordered protein associated with thyroid cancer.
    Cancer Res. 2004 Apr 15;64(8):2766-73 PMID: 15087392
  365. Correlation between sites of limited proteolysis and segmental mobility in thermolysin.
    Biochemistry. 1986 Apr 22;25(8):1847-51 PMID: 3707915
  366. Identification of small molecules that induce apoptosis in a Myc-dependent manner and inhibit Myc-driven transformation.
    Proc Natl Acad Sci U S A. 2006 Apr 18;103(16):6344-9 PMID: 16606833
  367. Circular dichroism and optical rotatory dispersion of proteins and polypeptides.
    Methods Enzymol. 1973;27:675-735 PMID: 4797940
  368. ELM: the status of the 2010 eukaryotic linear motif resource.
    Nucleic Acids Res. 2010 Jan;38(Database issue):D167-80 PMID: 19920119
  369. Role of intrinsic disorder in transient interactions of hub proteins.
    Proteins. 2007 Mar 1;66(4):761-5 PMID: 17154416
  370. Analysis of p53-regulated gene expression patterns using oligonucleotide arrays.
    Genes Dev. 2000 Apr 15;14(8):981-93 PMID: 10783169
  371. Functional aspects of protein flexibility.
    Cell Mol Life Sci. 2009 Jul;66(14):2231-47 PMID: 19308324
  372. Protein disorder in the human diseasome: unfoldomics of human genetic diseases.
    BMC Genomics. 2009 Jul 07;10 Suppl 1:S12 PMID: 19594871
  373. Accuracy of protein flexibility predictions.
    Proteins. 1994 Jun;19(2):141-9 PMID: 8090708
  374. Biophysical constraints for protein structure prediction.
    J Proteome Res. 2003 Jan-Feb;2(1):37-42 PMID: 12643541
  375. Thymosins: both nuclear and cytoplasmic proteins.
    Eur J Biochem. 1990 Sep 24;192(3):643-51 PMID: 2209614
  376. Design of a synthetic Mdm2-binding mini protein that activates the p53 response in vivo.
    Curr Biol. 1997 Nov 1;7(11):860-9 PMID: 9382809
  377. Protein denaturation.
    Adv Protein Chem. 1968;23:121-282 PMID: 4882248
  378. Natively unfolded proteins: a point where biology waits for physics.
    Protein Sci. 2002 Apr;11(4):739-56 PMID: 11910019
  379. Composition Profiler: a tool for discovery and visualization of amino acid composition differences.
    BMC Bioinformatics. 2007 Jun 19;8:211 PMID: 17578581
  380. Crystal structure of the ribosome at 5.5 A resolution.
    Science. 2001 May 4;292(5518):883-96 PMID: 11283358
  381. Intrinsic disorder and protein function.
    Biochemistry. 2002 May 28;41(21):6573-82 PMID: 12022860
  382. Protein-protein interactions in receptor activation and intracellular signalling.
    Biol Chem. 2000 Sep-Oct;381(9-10):955-9 PMID: 11076027
  383. Transient structure of the amyloid precursor protein cytoplasmic tail indicates preordering of structure for binding to cytosolic factors.
    Biochemistry. 2000 Mar 14;39(10):2714-25 PMID: 10704223
  384. POODLE-L: a two-level SVM prediction system for reliably predicting long disordered regions.
    Bioinformatics. 2007 Aug 15;23(16):2046-53 PMID: 17545177
  385. Anatomy of protein pockets and cavities: measurement of binding site geometry and implications for ligand design.
    Protein Sci. 1998 Sep;7(9):1884-97 PMID: 9761470
  386. Intrinsically disordered protein.
    J Mol Graph Model. 2001;19(1):26-59 PMID: 11381529
  387. Inactivation of the sodium channel. II. Gating current experiments.
    J Gen Physiol. 1977 Nov;70(5):567-90 PMID: 591912
  388. Probing the conformational state of apomyoglobin by limited proteolysis.
    J Mol Biol. 1997 Feb 21;266(2):223-30 PMID: 9047359
  389. Protein folding revisited. A polypeptide chain at the folding-misfolding-nonfolding cross-roads: which way to go?
    Cell Mol Life Sci. 2003 Sep;60(9):1852-71 PMID: 14523548
  390. Preformed secondary structure drives the association reaction of GCN4-p1, a model coiled-coil system.
    J Mol Biol. 2000 Mar 3;296(4):1105-16 PMID: 10686107
Article Info
Journal
Biochimica et biophysica acta
Abbr.
Biochim Biophys Acta
ISSN
0006-3002
Published
2010-06-00
Epub
2010-00-01
Pages
1231-64
Language
English
Region
Netherlands
NLM ID
0217513
PMCID
PMC2882790
Subset
IM
Grants
NIGMS NIH HHS · R01 GM071714 · United States
NIGMS NIH HHS · R01 GM071714-01A2 · United States
NLM NIH HHS · R01 LM007688 · United States
NLM NIH HHS · R01 LM007688-01A1 · United States
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