Literature DB >> 17158572

Intrinsic disorder and functional proteomics.

Predrag Radivojac1, Lilia M Iakoucheva, Christopher J Oldfield, Zoran Obradovic, Vladimir N Uversky, A Keith Dunker.   

Abstract

The recent advances in the prediction of intrinsically disordered proteins and the use of protein disorder prediction in the fields of molecular biology and bioinformatics are reviewed here, especially with regard to protein function. First, a close look is taken at intrinsically disordered proteins and then at the methods used for their experimental characterization. Next, the major statistical properties of disordered regions are summarized, and prediction models developed thus far are described, including their numerous applications in functional proteomics. The future of the prediction of protein disorder and the future uses of such predictions in functional proteomics comprise the last section of this article.

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Year:  2006        PMID: 17158572      PMCID: PMC1796814          DOI: 10.1529/biophysj.106.094045

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  191 in total

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Authors:  H Jane Dyson; Peter E Wright
Journal:  Adv Protein Chem       Date:  2002

2.  Mining the structural genomics pipeline: identification of protein properties that affect high-throughput experimental analysis.

Authors:  Chern-Sing Goh; Ning Lan; Shawn M Douglas; Baolin Wu; Nathaniel Echols; Andrew Smith; Duncan Milburn; Gaetano T Montelione; Hongyu Zhao; Mark Gerstein
Journal:  J Mol Biol       Date:  2004-02-06       Impact factor: 5.469

3.  NORSp: Predictions of long regions without regular secondary structure.

Authors:  Jinfeng Liu; Burkhard Rost
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

4.  Preformed structural elements feature in partner recognition by intrinsically unstructured proteins.

Authors:  Monika Fuxreiter; István Simon; Peter Friedrich; Peter Tompa
Journal:  J Mol Biol       Date:  2004-05-14       Impact factor: 5.469

5.  Restoration of inactivation in mutants of Shaker potassium channels by a peptide derived from ShB.

Authors:  W N Zagotta; T Hoshi; R W Aldrich
Journal:  Science       Date:  1990-10-26       Impact factor: 47.728

Review 6.  Flexible nets. The roles of intrinsic disorder in protein interaction networks.

Authors:  A Keith Dunker; Marc S Cortese; Pedro Romero; Lilia M Iakoucheva; Vladimir N Uversky
Journal:  FEBS J       Date:  2005-10       Impact factor: 5.542

7.  Unraveling the nature of the segmentation clock: Intrinsic disorder of clock proteins and their interaction map.

Authors:  Sourav Roy; Santiago Schnell; Predrag Radivojac
Journal:  Comput Biol Chem       Date:  2006-06-22       Impact factor: 2.877

8.  The molten globule is a third thermodynamical state of protein molecules.

Authors:  O B Ptitsyn; V N Uversky
Journal:  FEBS Lett       Date:  1994-03-14       Impact factor: 4.124

9.  Biophysical characterisation reveals structural disorder in the nucleolar protein, Dribble.

Authors:  C-P Benny Yiu; Rebecca L Beavil; H Y Edwin Chan
Journal:  Biochem Biophys Res Commun       Date:  2006-03-06       Impact factor: 3.575

10.  Prediction and functional analysis of native disorder in proteins from the three kingdoms of life.

Authors:  J J Ward; J S Sodhi; L J McGuffin; B F Buxton; D T Jones
Journal:  J Mol Biol       Date:  2004-03-26       Impact factor: 5.469

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  284 in total

1.  Actin cytoskeleton remodeling by the alternatively spliced isoform of PDLIM4/RIL protein.

Authors:  Olga A Guryanova; Judith A Drazba; Elena I Frolova; Peter M Chumakov
Journal:  J Biol Chem       Date:  2011-06-02       Impact factor: 5.157

2.  Chain collapse of an amyloidogenic intrinsically disordered protein.

Authors:  Neha Jain; Mily Bhattacharya; Samrat Mukhopadhyay
Journal:  Biophys J       Date:  2011-10-05       Impact factor: 4.033

Review 3.  Fuzzy complexes of myelin basic protein: NMR spectroscopic investigations of a polymorphic organizational linker of the central nervous system.

Authors:  David S Libich; Mumdooh A M Ahmed; Ligang Zhong; Vladimir V Bamm; Vladimir Ladizhansky; George Harauz
Journal:  Biochem Cell Biol       Date:  2010-04       Impact factor: 3.626

4.  Mapping the conformational mobility of multidomain proteins.

Authors:  Martin Blackledge
Journal:  Biophys J       Date:  2010-05-19       Impact factor: 4.033

Review 5.  Understanding protein non-folding.

Authors:  Vladimir N Uversky; A Keith Dunker
Journal:  Biochim Biophys Acta       Date:  2010-02-01

6.  Functional dissection of an intrinsically disordered protein: understanding the roles of different domains of Knr4 protein in protein-protein interactions.

Authors:  Adilia Dagkessamanskaia; Fabien Durand; Vladimir N Uversky; Matteo Binda; Frédéric Lopez; Karim El Azzouzi; Jean Marie Francois; Hélène Martin-Yken
Journal:  Protein Sci       Date:  2010-07       Impact factor: 6.725

7.  Modeling the self-assembly of the cellulosome enzyme complex.

Authors:  Yannick J Bomble; Gregg T Beckham; James F Matthews; Mark R Nimlos; Michael E Himmel; Michael F Crowley
Journal:  J Biol Chem       Date:  2010-11-22       Impact factor: 5.157

8.  Atomistic Glimpse of the Orderly Chaos of One Protein.

Authors:  Jianhan Chen
Journal:  Biophys J       Date:  2015-10-20       Impact factor: 4.033

9.  The Argonaute-binding platform of NRPE1 evolves through modulation of intrinsically disordered repeats.

Authors:  Joshua T Trujillo; Mark A Beilstein; Rebecca A Mosher
Journal:  New Phytol       Date:  2016-07-19       Impact factor: 10.151

10.  Expression, purification, and characterization of a structurally disordered and functional C-terminal autoinhibitory domain (AID) of the 70 kDa 40S ribosomal protein S6 kinase-1 (S6K1).

Authors:  Timothy J Ragan; Duncan B Ross; Malik M Keshwani; Thomas K Harris
Journal:  Protein Expr Purif       Date:  2007-10-01       Impact factor: 1.650

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