Intrinsic Disorder and Protein Function

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Items 201–300 of 1,001

  1. Intrinsic disorder in pathogenic and non-pathogenic microbes: discovering and analyzing the unfoldomes of early-branching eukaryotes
    Amrita Mohan, William J. Sullivan, Predrag Radivojac A, A. Keith Dunker, Vladimir Nikolaevich Uversky · 2008 · Molecular BioSystems
  2. Interplay between partner and ligand facilitates the folding and binding of an intrinsically disordered protein
    Joseph M. Rogers, Vladimiras Oleinikovas, Sarah L. Shammas, Chi Tung Wong, David De Sancho, Christopher M. Baker, Jane Clarke · 2014 · Proceedings of the National Academy of Sciences
  3. Protein intrinsic disorder and structure-function continuum
    Vladimir Nikolaevich Uversky · 2019 · Progress in molecular biology and translational science
  4. The Chaperone Activity and Substrate Spectrum of Human Small Heat Shock Proteins
    Evgeny V. Mymrikov, Marina Daake, Bettina Richter, Martin Haslbeck, Johannes Büchner · 2016 · Journal of Biological Chemistry
  5. Intrinsically disordered proteins and multicellular organisms
    Dunker, A. Keith, Bondos, Sarah E., Huang, Fei, Oldfield, Christopher J. · 2015 · Seminars in Cell & Developmental Biology
  6. Computational prediction of eukaryotic phosphorylation sites
    Brett Trost, ANTHONY J. KUSALIK · 2011 · Bioinformatics
  7. Analysis of protein function and its prediction from amino acid sequence
    Wyatt Travis Clark, Predrag Radivojac A · 2011 · Proteins Structure Function and Bioinformatics
  8. iPhos-PseEn: Identifying phosphorylation sites in proteins by fusing different pseudo components into an ensemble classifier
    Wang‐Ren Qiu, Xuan Xiao, Zhaochun Xu, Kuo‐Chen Chou · 2016 · Oncotarget
  9. Pathogenesis related protein-1 (PR-1) genes in tomato (Solanum lycopersicum L.): Bioinformatics analyses and expression profiles in response to drought stress
    M. Aydın Akbudak, Sukran Yildiz, Ertuğrul Filiz · 2020 · Genomics
  10. Structural Details on mdm2-p53 Interaction
    Seung‐Wook Chi, Si‐Hyung Lee, Do‐Hyoung Kim, Min-Jung Ahn, Kim Js, Jin-Young Woo, Takuya Torizawa, Masatsune Kainosho, Kyou‐Hoon Han · 2005 · Journal of Biological Chemistry
  11. Rational design of antibodies targeting specific epitopes within intrinsically disordered proteins
    Pietro Sormanni, Francesco A. Aprile, Michele Vendruscolo · 2015 · Proceedings of the National Academy of Sciences
  12. p57KIP2: “Kip”ing the Cell under Control
    Ioannis S. Pateras, Kalliopi Apostolopoulou, Katerina Niforou, Athanassios Kotsinas, Vassilis G. Gorgoulis · 2009 · Molecular Cancer Research
  13. Quantitative Characterization of Intrinsic Disorder in Polyglutamine: Insights from Analysis Based on Polymer Theories
    Andreas Vitalis, Xiao-Ling Wang, Rohit V. Pappu · 2007 · Biophysical Journal
  14. The most important thing is the tail: Multitudinous functionalities of intrinsically disordered protein termini
    Vladimir Nikolaevich Uversky · 2013 · FEBS Letters
  15. Looking into live cells with in-cell NMR spectroscopy
    Philipp Selenko, Gerhard Wagner · 2007 · Journal of Structural Biology
  16. Protein disorder in the human diseasome: unfoldomics of human genetic diseases
    Uros Midic, Christopher J. Oldfield, A. Keith Dunker, Zoran Obradovic A, Vladimir Nikolaevich Uversky · 2009 · BMC Genomics
  17. A Tale of Two Citrullines—Structural and Functional Aspects of Myelin Basic Protein Deimination in Health and Disease
    George Harauz, Abdiwahab A. Musse · 2006 · Neurochemical Research
  18. Inferring Function Using Patterns of Native Disorder in Proteins
    Anna Lobley, Mark B. Swindells, Christine Anne Orengo, David T. Jones · 2005 · PLoS Computational Biology
  19. Quantitative Conformational Analysis of Partially Folded Proteins from Residual Dipolar Couplings: Application to the Molecular Recognition Element of Sendai Virus Nucleoprotein
    Malene Ringkjøbing Jensen, Klaartje Houben, Ewen Lescop, Laurence Blanchard, Rob W. H. Ruigrok, Martin J Blackledge · 2008 · Journal of the American Chemical Society
  20. CDF it all: Consensus prediction of intrinsically disordered proteins based on various cumulative distribution functions
    Bin Xue, Christopher J. Oldfield, A. Keith Dunker, Vladimir Nikolaevich Uversky · 2009 · FEBS Letters
  21. Potential roles of abundant extracellular chaperones in the control of amyloid formation and toxicity
    Wilson, Mark R, Yerbury, Justin J, Poon, Stephen · 2007 · Molecular BioSystems
  22. Targeting intrinsically disordered proteins in neurodegenerative and protein dysfunction diseases: another illustration of the D2concept
    Vladimir Nikolaevich Uversky · 2010 · Expert Review of Proteomics
  23. Identification of Specific Functional Subdomains within the Linker Histone H10 C-terminal Domain
    Xu Lu, Jeffrey C. Hansen · 2004 · Journal of Biological Chemistry
  24. Raman Optical Activity: A Tool for Protein Structure Analysis
    Fujiang Zhu, Neil W. Isaacs, Lutz Hecht, Laurence David Barron · 2005 · Structure
  25. Conservation of Intrinsic Disorder in Protein Domains and Families: II. Functions of Conserved Disorder
    Jessica Walton Chen, Pedro R Romero, Vladimir Nikolaevich Uversky, A. Keith Dunker · 2006 · Journal of Proteome Research
  26. Protein Intrinsic Disorder and Human Papillomaviruses: Increased Amount of Disorder in E6 and E7 Oncoproteins from High Risk HPVs
    Vladimir Nikolaevich Uversky, Ann Roman, Christopher J. Oldfield, A. Keith Dunker · 2006 · Journal of Proteome Research
  27. An experimental study of GFP‐based FRET, with application to intrinsically unstructured proteins
    Tomoo Ohashi, Stephane D. Galiacy, Gina Briscoe, Harold Erickson · 2007 · Protein Science
  28. POODLE-L: a two-level SVM prediction system for reliably predicting long disordered regions
    Shuichi Hirose, Kana Shimizu, Satoru Kanai, Yutaka Kuroda, Tamotsu Noguchi · 2007 · Bioinformatics
  29. Single-Molecule Studies of Intrinsically Disordered Proteins
    Marco Brucale, Benjamin Schuler, Bruno Samorı̀ · 2014 · Chemical Reviews
  30. High‐accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast
    Florian Gnad, Lyris Martins Franco de Godoy, Jürgen Cox, Nadin Neuhauser, Shubin Ren, Jesper V. Olsen, Matthias Mann · 2009 · PROTEOMICS
  31. Structural Investigation of Disordered Stress Proteins. Comparison of Full-Length Dehydrins with Isolated Peptides of Their Conserved Segments
    Jean‐Marie Mouillon, Petter Gustafsson, Pia Harryson · 2006 · PLANT PHYSIOLOGY
  32. Describing sequence–ensemble relationships for intrinsically disordered proteins
    Mao, Albert H., Lyle, Nicholas, Pappu, Rohit V. · 2013 · Biochemical Journal
  33. The alphabet of intrinsic disorder
    Vladimir Nikolaevich Uversky · 2013 · Intrinsically Disordered Proteins
  34. The multifaceted roles of intrinsic disorder in protein complexes
    Vladimir Nikolaevich Uversky · 2015 · FEBS Letters
  35. Intrinsic disorder: signaling via highly specific but short-lived association
    Huan‐Xiang Zhou · 2011 · Trends in Biochemical Sciences
  36. An enzymatic molten globule: Efficient coupling of folding and catalysis
    Katherina Vamvaca, Beat Vögeli, Peter Kast, Konstantin V. Pervushin, Donald Hilvert · 2004 · Proceedings of the National Academy of Sciences
  37. Mapping the Potential Energy Landscape of Intrinsically Disordered Proteins at Amino Acid Resolution
    Valéry Ozenne, Robert C. Schneider, Mingxi Yao, Jie‐rong Huang, Loïc Salmon, Markus Zweckstetter, Malene Ringkjøbing Jensen, Martin J Blackledge · 2012 · Journal of the American Chemical Society
  38. Disordered Proteinaceous Machines
    Mónika Fuxreiter, Ágnes Tóth-Petróczy, Daniel Adam Kraut, Andreas T. Matouschek, Roderick Y. H. Lim, Bin Xue, Lukasz Kurgan, Vladimir Nikolaevich Uversky · 2014 · Chemical Reviews
  39. Diversity and genomics of Antarctic marine micro-organisms
    Alison E. Murray, Joseph J. Grzymski · 2007 · Philosophical Transactions of the Royal Society B Biological Sciences
  40. Natively Unfolded Protein Stability as a Coil-to-Globule Transition in Charge/Hydropathy Space
    Henry S. Ashbaugh, Harold W. Hatch · 2008 · Journal of the American Chemical Society
  41. A microscale protein NMR sample screening pipeline
    Paolo Rossi, G.V.T. Swapna, Yuanpeng Janet Huang, James M. Aramini, Clemens G. Anklin, Kenith Conover, Keith Hamilton, Rong Xiao, Thomas Acton, Asli Ertekin et al. · 2009 · Journal of Biomolecular NMR
  42. On the abundance, amino acid composition, and evolutionary dynamics of low-complexity regions in proteins
    Mark A. DePristo, Martine M. Zilversmit, Daniel L. Hartl · 2006 · Gene
  43. Disordered nucleiome: Abundance of intrinsic disorder in the DNA‐ and RNA‐binding proteins in 1121 species from Eukaryota, Bacteria and Archaea
    Chen Wang, Vladimir Nikolaevich Uversky, Lukasz Kurgan · 2016 · PROTEOMICS
  44. Molecular Mechanisms Underlying the Flavonoid-Induced Inhibition of α-Synuclein Fibrillation
    Xiaoyun Meng, Larissa A. Munishkina, Anthony L. Fink, Vladimir Nikolaevich Uversky · 2009 · Biochemistry
  45. Reduced amino acid alphabet is sufficient to accurately recognize intrinsically disordered protein
    Edward A. Weathers, Michael E. Paulaitis, Thomas B. Woolf, Jan H. Hoh · 2004 · FEBS Letters
  46. Proteome-Wide Discovery of Evolutionary Conserved Sequences in Disordered Regions
    Alex N. Nguyen Ba, Brian J. Yeh, Dewald van Dyk, Alan R. Davidson, Brenda Andrews, Eric L. Weiss, Alan M Moses · 2012 · Science Signaling
  47. Liquid–liquid phase separation as an organizing principle of intracellular space: overview of the evolution of the cell compartmentalization concept
    Iuliia A. Antifeeva, Alexander V. Fonin, Anna S. Fefilova, Olesya V. Stepanenko, Olga I. Povarova, Sergey A. Silonov, Irina М. Kuznetsova, Vladimir Nikolaevich Uversky, Туроверов Константин Константинович · 2022 · Cellular and Molecular Life Sciences
  48. Conservation of Intrinsic Disorder in Protein Domains and Families: I. A Database of Conserved Predicted Disordered Regions
    Jessica Walton Chen, Pedro R Romero, Vladimir Nikolaevich Uversky, A. Keith Dunker · 2006 · Journal of Proteome Research
  49. Finding Our Way in the Dark Proteome
    Bhowmick, Asmit, Brookes, David H., Yost, Shane R., Dyson, H. Jane, Forman-Kay, Julie D., Gunter, Daniel, Head-Gordon, Martin, Hura, Gregory L., Pande, Vijay S., Wemmer, David E. et al. · 2016 · Journal of the American Chemical Society
  50. New Force Field on Modeling Intrinsically Disordered Proteins
    Wei Wang, Wei Ye, Cheng Jiang, Ray Luo, Haifeng Chen · 2014 · Chemical Biology & Drug Design
  51. Combining prediction, computation and experiment for the characterization of protein disorder
    Clay Bracken, Lilia M. Iakoucheva, Pedro R Romero, A. Keith Dunker · 2004 · Current Opinion in Structural Biology
  52. Role of metal ions in aggregation of intrinsically disordered proteins in neurodegenerative diseases
    Leonid Breydo, Vladimir Nikolaevich Uversky · 2011 · Metallomics
  53. Variation Interpretation Predictors: Principles, Types, Performance, and Choice
    Abhishek Niroula, Mauno Vihinen · 2016 · Human Mutation
  54. Spritz: a server for the prediction of intrinsically disordered regions in protein sequences using kernel machines
    Alessandro Vullo, Oscar Bortolami, Gianluca Pollastri, Silvio C. E. Tosatto · 2006 · Nucleic Acids Research
  55. IDEAL in 2014 illustrates interaction networks composed of intrinsically disordered proteins and their binding partners
    Satoshi Fukuchi, Takayuki Amemiya, Shigetaka Sakamoto, Yukiko Nobe, Kazuo Hosoda, Yumiko Kado, Seiko D. Murakami, Ryotaro Koike, Hidekazu Hiroaki, Motonori Ota · 2013 · Nucleic Acids Research
  56. Prevalent Structural Disorder inE.coliandS.cerevisiaeProteomes
    Péter Tompa, Zsuzsanna Dosztányi, István Simon · 2006 · Journal of Proteome Research
  57. Computational Amide I 2D IR Spectroscopy as a Probe of Protein Structure and Dynamics.
    Mike Reppert, A. Tokmakoff · 2016 · Annual review of physical chemistry (Print)
  58. Folding and Binding of an Intrinsically Disordered Protein: Fast, but Not ‘Diffusion-Limited’
    Joseph M. Rogers, Annette Steward, Jane Clarke · 2013 · Journal of the American Chemical Society
  59. More than just tails: intrinsic disorder in histone proteins
    Zhenling Peng, Marcin J. Mizianty, Bin Xue, Lukasz Kurgan, Vladimir Nikolaevich Uversky · 2012 · Molecular BioSystems
  60. Protein-Water and Protein-Buffer Interactions in the Aqueous Solution of an Intrinsically Unstructured Plant Dehydrin: NMR Intensity and DSC Aspects
    Péter Tompa, Péter Bánki, M. Bokor, Pável Kamasa, Dénes Kovács, György Lasanda, Kalman Tompa · 2006 · Biophysical Journal
  61. Computational Simulation of the Statistical Properties of Unfolded Proteins
    David P. Goldenberg · 2003 · Journal of Molecular Biology
  62. The human RBPome: From genes and proteins to human disease
    Yaseswini Neelamraju, Seyedsasan Hashemikhabir, Sarath Chandra Janga · 2015 · Journal of Proteomics
  63. Recent Force Field Strategies for Intrinsically Disordered Proteins
    Junxi Mu, Hao Liu, Jian Zhang, Ray Luo, Haifeng Chen · 2021 · Journal of Chemical Information and Modeling
  64. Intrinsic Disorder in Protein Interactions: Insights From a Comprehensive Structural Analysis
    Jessica H. Fong, Benjamin A. Shoemaker, Sergiy O. Garbuzynskiy, Michail Yu. Lobanov, Oxana V. Galzitskaya, Anna R. Panchenko · 2009 · PLoS Computational Biology
  65. Structural and functional analysis of Nup133 domains reveals modular building blocks of the nuclear pore complex
    Ian C. Berke, Thomas Boehmer, Günter Blobel, Thomas Schwartz · 2004 · The Journal of Cell Biology
  66. Advances in the characterization of RNA‐binding proteins
    Doménica Marchese, Natalia Sánchez de Groot, Nieves Lorenzo-Gotor, Carmen Maria Livi, Gian Gaetano Tartaglia · 2016 · Wiley Interdisciplinary Reviews - RNA
  67. Dynamic interactions of proteins in complex networks: a more structured view
    Amelie Stein, Roland A. Pache, Pau Bernadó, Miquel Pons, Patrick Aloy · 2009 · FEBS Journal
  68. Polycation‐induced oligomerization and accelerated fibrillation of human α‐synuclein in vitro
    John W.F. Goers, Vladimir Nikolaevich Uversky, Anthony L. Fink · 2003 · Protein Science
  69. Intrinsic disorder is a key characteristic in partners that bind 14‐3‐3 proteins
    Diego M. Bustos, Alberto Á. Iglesias · 2006 · Proteins Structure Function and Bioinformatics
  70. Regulation of the Neuron-specific Ras GTPase-activating Protein, synGAP, by Ca2+/Calmodulin-dependent Protein Kinase II
    Jeong Su Oh, Pasquale Manzerra, Mary B. Kennedy · 2004 · Journal of Biological Chemistry
  71. A Propensity Scale for Type II Polyproline Helices (PPII): Aromatic Amino Acids in Proline-Rich Sequences Strongly Disfavor PPII Due to Proline–Aromatic Interactions
    Alaina M. Brown, Neal Joseph Zondlo · 2012 · Biochemistry
  72. Prediction of unfolded segments in a protein sequence based on amino acid composition
    Karen Coeytaux, Anne Poupon · 2005 · Computer applications in the biosciences
  73. Effect of interdomain dynamics on the structure determination of modular proteins by small-angle scattering
    Pau Bernadó · 2009 · European Biophysics Journal
  74. Intrinsic Disorder, Protein–Protein Interactions, and Disease
    Vladimir Nikolaevich Uversky · 2017 · Advances in protein chemistry and structural biology
  75. Genome-scale prediction of proteins with long intrinsically disordered regions
    Zhenling Peng, Marcin J. Mizianty, Lukasz Kurgan · 2013 · Proteins Structure Function and Bioinformatics
  76. Recent Developments in the Field of Intrinsically Disordered Proteins: Intrinsic Disorder–Based Emergence in Cellular Biology in Light of the Physiological and Pathological Liquid–Liquid Phase Transitions
    Vladimir Nikolaevich Uversky · 2021 · Annual Review of Biophysics
  77. Tandem and cryptic amino acid repeats accumulate in disordered regions of proteins
    Michelle Simon, John M. Hancock · 2009 · Genome biology
  78. POODLE-S: web application for predicting protein disorder by using physicochemical features and reduced amino acid set of a position-specific scoring matrix
    Kana Shimizu, Shuichi Hirose, Tamotsu Noguchi · 2007 · Bioinformatics
  79. Two distinct interaction motifs in amphiphysin bind two independent sites on the clathrin terminal domain β-propeller
    Adriana Erica Miele, Peter J. Watson, Philip R. Evans, Linton M. Traub, David J. Owen · 2004 · Nature Structural & Molecular Biology
  80. The Importance of Being Flexible: The Case of Basic Region Leucine Zipper Transcriptional Regulators
    Maria Miller · 2009 · Current Protein and Peptide Science
  81. Intrinsic disorder in cell signaling and gene transcription
    Ágnes Tantos, Kyou‐Hoon Han, Péter Tompa · 2011 · Molecular and Cellular Endocrinology
  82. Structural Diversity in Free and Bound States of Intrinsically Disordered Protein Phosphatase 1 Regulators
    Joseph A. Marsh, Barbara Dancheck, Michael J. Ragusa, Marc Allaire, Julie Deborah Forman-Kay, Wolfgang Peti · 2010 · Structure
  83. Intrinsically disordered proteins and novel strategies for drug discovery
    Vladimir Nikolaevich Uversky · 2012 · Expert Opinion on Drug Discovery
  84. Mechanisms of secondary structure breakers in soluble proteins
    Kenichiro Imai, Shigeki Mitaku · 2005 · BIOPHYSICS
  85. Serine/arginine-rich splicing factors belong to a class of intrinsically disordered proteins
    Christy L. Haynes · 2006 · Nucleic Acids Research
  86. Natively unfolded C‐terminal domain of caldesmon remains substantially unstructured after the effective binding to calmodulin
    Permyakov, Sergei E., Millett, Ian S., Doniach, Sebastian, Permyakov, Eugene A., Uversky, Vladimir N. · 2003 · Proteins: Structure, Function, and Bioinformatics
  87. Aggregation of the Salivary Proline-Rich Protein IB5 in the Presence of the Tannin EgCG
    Francis Canon, Franck Paté, Véronique Cheynier, Pascale Sarni‐Manchado, Alexandre Giuliani, Javier Pérez, DURAND Dominique Christiane, Joaquim Li, Bernard Cabane · 2013 · Langmuir
  88. Characterization of β-N-Acetylglucosaminidase Cleavage by Caspase-3 during Apoptosis
    Chutikarn Butkinaree, Win D. Cheung, Sung Jin Park, Kyoungsook Park, Megan Barber, Gerald Warren Hart · 2008 · Journal of Biological Chemistry
  89. TarO: a target optimisation system for structural biology
    Ian M. Overton, C. A. Johannes van Niekerk, Lester G. Carter, Alice Dawson, David M. A. Martin, Scott Cameron, Stephen A. McMahon, Malcolm F. White, William N. Hunter, James H. Naismith et al. · 2008 · Nucleic Acids Research
  90. Computational Prediction of Type III and IV Secreted Effectors in Gram-Negative Bacteria
    Jason McDermott, Abigail Corrigan, Elena Peterson, CHRISTOPHER S. OEHMEN, George Niemann, Eric D. Cambronne, Danna Sharp, Joshua Adkins, Ram Samudrala, Fred Heffron · 2010 · Infection and Immunity
  91. Prediction of Protein-Protein Interaction Sites by Random Forest Algorithm with mRMR and IFS
    Biqing Li, Kaiyan Feng, Lei Chen, Tao Huang, Yu‐Dong Cai · 2012 · PLoS ONE
  92. Cryo-EM: beyond the microscope
    Lesley A. Earl, Veronica Falconieri, Jacqueline L.S. Milne, Sriram Subramaniam · 2017 · Current Opinion in Structural Biology
  93. The Protein Folding Problem: The Role of Theory
    Roy Nassar, Gregory L. Dignon, Rostam M. Razban, Ken A. Dill · 2021 · Journal of Molecular Biology
  94. Tuning Bulk Electrostatics to Regulate Protein Function
    Zach Serber, James E. Ferrell · 2007 · Cell
  95. Challenges Predicting Ligand-Receptor Interactions of Promiscuous Proteins: The Nuclear Receptor PXR
    Sean Ekins, Sandhya Kortagere, Manisha Iyer, Erica J. Reschly, Markus A. Lill, Matthew R. Redinbo, Matthew D. Krasowski · 2009 · PLoS Computational Biology
  96. Casein Proteins: Structural and Functional Aspects
    Mohd Younus Bhat, Tanveer Ali Dar, Laishram Rajendrakumar Singh · 2016 · InTech eBooks
  97. On the roles of intrinsically disordered proteins and regions in cell communication and signaling
    Sarah E. Bondos, A. Keith Dunker, Vladimir Nikolaevich Uversky · 2021 · Cell Communication and Signaling
  98. Multi-Timescale Dynamics in Intrinsically Disordered Proteins from NMR Relaxation and Molecular Simulation.
    N. Salvi, A. Abyzov, M. Blackledge · 2016 · Journal of Physical Chemistry Letters
  99. Targeting disordered proteins with small molecules using entropy
    Gabriella T. Heller, Pietro Sormanni, Michele Vendruscolo · 2015 · Trends in Biochemical Sciences
  100. Application of NMR to studies of intrinsically disordered proteins
    Eric B. Gibbs, Erik C. Cook, Scott A. Showalter · 2017 · Archives of Biochemistry and Biophysics