Context‐dependent resistance to proteolysis of intrinsically disordered proteins

No abstract is available for this paper.

• Publication year

  2011

• Venue

  Protein Science

• Publication date

  2011-08-01

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1002/pro.657PMID 21574196PMCID PMC3189518
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Identifying disordered regions in proteins by limited proteolysis.

  2012cited by this paper
• Proteasome activators.

  2011cited by this paper
• Disorder targets misorder in nuclear quality control degradation: a disordered ubiquitin ligase directly recognizes its misfolded substrates.

  2011cited by this paper
• Rad23 escapes degradation because it lacks a proteasome initiation region

  2011cited by this paper
• Bringing order to protein disorder through comparative genomics and genetic interactions

  2011cited by this paper
• Defining the geometry of the two-component proteasome degron

  2011cited by this paper
• Proteome Half-Life Dynamics in Living Human Cells

  2011cited by this paper
• Self-Organization and Regulation of Intrinsically Disordered Proteins with Folded N-Termini

  2011cited by this paper
• The N-terminal unstructured domain of yeast ODC functions as a transplantable and replaceable ubiquitin-independent degron.

  2011cited by this paper
• Abduction and asylum in the lives of transcription factors

  2010cited by this paper
• 20. Detecting Disordered Regions in Proteins by Limited Proteolysis

  2010cited by this paper
• The proteasome antechamber maintains substrates in an unfolded state

  2010cited by this paper
• Identification, analysis, and prediction of protein ubiquitination sites

  2010cited by this paper
• Purification of Intrinsically Disordered Proteins

  2010cited by this paper
• Update 1 of: Proteases universally recognize beta strands in their active sites.

  2010cited by this paper
• REGγ proteasome mediates degradation of the ubiquitin ligase Smurf1

  2010cited by this paper
• Ubiquitin not only serves as a tag but also assists degradation by inducing protein unfolding

  2010cited by this paper
• Instrumental Analysis of Intrinsically Disordered Proteins: Assessing Structure and Conformation

  2010cited by this paper
• Characterization of the Brain 26S Proteasome and its Interacting Proteins

  2010cited by this paper
• Structure/function implications in a dynamic complex of the intrinsically disordered Sic1 with the Cdc4 subunit of an SCF ubiquitin ligase.

  2010cited by this paper
• Ubiquitin-independent p53 proteasomal degradation

  2010cited by this paper
• MDM2 Promotes Proteasomal Degradation of p21Waf1 via a Conformation Change*

  2010cited by this paper
• Toward an Integrated Structural Model of the 26S Proteasome*

  2010cited by this paper
• The ligand-free state of the TPP riboswitch: a partially folded RNA structure.

  2010influential reference
• Proteomic identification of Hsc70 as a mediator of RGS9-2 degradation by in vivo interactome analysis.

  2010cited by this paper
• Dynamic Regulation of Archaeal Proteasome Gate Opening As Studied by TROSY NMR

  2010cited by this paper
• How do new proteins arise?

  2010cited by this paper
• Chaperone-assisted degradation: multiple paths to destruction

  2010cited by this paper
• c-Fos Proteasomal Degradation Is Activated by a Default Mechanism, and Its Regulation by NAD(P)H:Quinone Oxidoreductase 1 Determines c-Fos Serum Response Kinetics

  2010cited by this paper
• Pupylation versus ubiquitylation: tagging for proteasome‐dependent degradation

  2010cited by this paper
• A tetrahedral transition state at the active sites of the 20S proteasome is coupled to opening of the alpha-ring channel.

  2009cited by this paper
• Susceptibility of p53 Unstructured N Terminus to 20 S Proteasomal Degradation Programs the Stress Response*♦

  2009cited by this paper
• Ubiquitin degradation with its substrate, or as a monomer in a ubiquitination-independent mode, provides clues to proteasome regulation

  2009cited by this paper
• Assessing Structures and Conformations of Intrinsically Disordered Proteins

  2009cited by this paper
• The nanny model for IDPs.

  2009cited by this paper
• Structure and Function of Intrinsically Disordered Proteins

  2009cited by this paper
• Proteasomes can degrade a significant proportion of cellular proteins independent of ubiquitination.

  2009cited by this paper
• An in vitro selection strategy for conferring protease resistance to ligand binding peptides.

  2009cited by this paper
• The Ubiquitin Ligase Hul5 Promotes Proteasomal Processivity

  2009cited by this paper
• Quinone reductase acts as a redox switch of the 20S yeast proteasome

  2009cited by this paper
• Degradation of Some Polyubiquitinated Proteins Requires an Intrinsic Proteasomal Binding Element in the Substrates*

  2009cited by this paper
• Recognition and processing of ubiquitin-protein conjugates by the proteasome.

  2009cited by this paper
• Insights into the regulation of intrinsically disordered proteins in the human proteome by analyzing sequence and gene expression data

  2009cited by this paper
• Kinetic advantage of intrinsically disordered proteins in coupled folding-binding process: a critical assessment of the "fly-casting" mechanism.

  2009cited by this paper
• Controlled destruction: AAA+ ATPases in protein degradation from bacteria to eukaryotes.

  2009cited by this paper
• The Intrinsically Disordered N-terminal Domain of Thymidylate Synthase Targets the Enzyme to the Ubiquitin-independent Proteasomal Degradation Pathway*

  2009cited by this paper
• Intrinsically Disordered Proteins Display No Preference for Chaperone Binding In Vivo

  2008cited by this paper
• Proteasomal Turnover of Hepatitis C Virus Core Protein Is Regulated by Two Distinct Mechanisms: a Ubiquitin-Dependent Mechanism and a Ubiquitin-Independent but PA28γ-Dependent Mechanism

  2008cited by this paper
• Function and structure of inherently disordered proteins.

  2008cited by this paper
• Protein folding in confined and crowded environments.

  2008cited by this paper
• Fuzzy complexes: polymorphism and structural disorder in protein-protein interactions.

  2008cited by this paper
• Global Protein Stability Profiling in Mammalian Cells

  2008influential reference
• Substrate selection by the proteasome during degradation of protein complexes

  2008cited by this paper
• Structural disorder serves as a weak signal for intracellular protein degradation

  2008cited by this paper
• Recognition of misfolded proteins by Lon, a AAA(+) protease.

  2008cited by this paper
• Gly-Ala Repeats Induce Position- and Substrate-specific Regulation of 26 S Proteasome-dependent Partial Processing*

  2008cited by this paper
• To cell cycle, swing the APC/C.

  2008cited by this paper
• Self‐recognition by an intrinsically disordered protein

  2008cited by this paper
• Biophysical characterization of the unstructured cytoplasmic domain of the human neuronal adhesion protein neuroligin 3.

  2008cited by this paper
• NMR observation of Tau in Xenopus oocytes.

  2008cited by this paper
• Protein targeting to ATP-dependent proteases.

  2008cited by this paper
• Biological function in a non‐native partially folded state of a protein

  2008cited by this paper
• Fly-casting in protein-DNA binding: frustration between protein folding and electrostatics facilitates target recognition.

  2007cited by this paper
• Operational definition of intrinsically unstructured protein sequences based on susceptibility to the 20S proteasome

  2007influential reference
• Ubiquitin-Independent Proteasomal Degradation of Fra-1 Is Antagonized by Erk1/2 Pathway-Mediated Phosphorylation of a Unique C-Terminal Destabilizer

  2007cited by this paper
• Proteasome substrate degradation requires association plus extended peptide

  2007cited by this paper
• Constitutive/Hypoxic Degradation of HIF-α Proteins by the Proteasome Is Independent of von Hippel Lindau Protein Ubiquitylation and the Transactivation Activity of the Protein*

  2007cited by this paper
• Natively unfolded nucleoporins gate protein diffusion across the nuclear pore complex.

  2007cited by this paper
• Ubiquitin- and ATP-independent proteolytic turnover of p21 by the REGgamma-proteasome pathway.

  2007cited by this paper
• Bim, Bad and Bmf: intrinsically unstructured BH3-only proteins that undergo a localized conformational change upon binding to prosurvival Bcl-2 targets

  2007cited by this paper
• Docking of the proteasomal ATPases' carboxyl termini in the 20S proteasome's alpha ring opens the gate for substrate entry.

  2007cited by this paper
• Autophagosome formation: core machinery and adaptations

  2007cited by this paper
• Ubiquitin is degraded by the ubiquitin system as a monomer and as part of its conjugated target.

  2007cited by this paper
• Ubiquitin-independent degradation of cell-cycle inhibitors by the REGgamma proteasome.

  2007cited by this paper
• Global organization and function of mammalian cytosolic proteasome pools: Implications for PA28 and 19S regulatory complexes.

  2006cited by this paper
• 20S proteasomes and protein degradation "by default".

  2006cited by this paper
• Proteasome-mediated protein processing by bidirectional degradation initiated from an internal site

  2006cited by this paper
• Crystal structure of the boronic acid-based proteasome inhibitor bortezomib in complex with the yeast 20S proteasome.

  2006cited by this paper
• Quantification of protein half-lives in the budding yeast proteome

  2006cited by this paper
• The SRC-3/AIB1 Coactivator Is Degraded in a Ubiquitin- and ATP-Independent Manner by the REGγ Proteasome

  2006cited by this paper
• The SRC-3/AIB1 coactivator is degraded in a ubiquitin- and ATP-independent manner by the REGgamma proteasome.

  2006cited by this paper
• A mechanism of ubiquitin-independent proteasomal degradation of the tumor suppressors p53 and p73.

  2005cited by this paper
• Variable Control of Ets-1 DNA Binding by Multiple Phosphates in an Unstructured Region

  2005cited by this paper
• Proteolysis: from the lysosome to ubiquitin and the proteasome

  2005cited by this paper
• MDM2 promotes proteasome-dependent ubiquitin-independent degradation of retinoblastoma protein.

  2005cited by this paper
• Intrinsically unstructured proteins and their functions

  2005cited by this paper
• Probing protein structure by limited proteolysis.

  2004cited by this paper
• An unstructured initiation site is required for efficient proteasome-mediated degradation

  2004cited by this paper
• 20S proteasome differentially alters translation of different mRNAs via the cleavage of eIF4F and eIF3.

  2004cited by this paper
• Two‐substrate association with the 20S proteasome at single‐molecule level

  2004cited by this paper
• Molecular shredders: how proteasomes fulfill their role.

  2003cited by this paper
• Proteasome degradation: enter the substrate.

  2003cited by this paper
• Proteasome disassembly and downregulation is correlated with viability during stationary phase.

  2003cited by this paper
• The pore of activated 20S proteasomes has an ordered 7‐fold symmetric conformation

  2003cited by this paper
• Disorder in the nuclear pore complex: The FG repeat regions of nucleoporins are natively unfolded

  2003cited by this paper
• Linkage between ATP consumption and mechanical unfolding during the protein processing reactions of an AAA+ degradation machine.

  2003cited by this paper
• The regions of securin and cyclin B proteins recognized by the ubiquitination machinery are natively unfolded

  2002cited by this paper
• Binding of Hydrophobic Peptides to Several Non-catalytic Sites Promotes Peptide Hydrolysis by All Active Sites of 20 S Proteasomes

  2002cited by this paper
• Endoproteolytic Activity of the Proteasome

  2002influential reference
• p53 contains large unstructured regions in its native state.

  2002cited by this paper

• Biophysical characterization of zinc and DNA binding properties of MRN complex interacting protein.

  2026cites this paper
• Calpain Mediated Proteolysis of Junctophilin-1 Produces an Aggregation Prone C-Terminal Fragment in Skeletal Muscle

  2026cites this paper
• Protein intrinsic disorder and adaptation to extreme environments: Resilience of chaos.

  2025cites this paper
• A truncated CDC14A retains catalytic structure and phosphatase activity preserving male fertility but causes nonsyndromic deafness

  2025cites this paper
• Designer Frankenproteins That Halt the Proliferation of Myc-Driven Cancer Cells.

  2025cites this paper
• Not Just PA28γ: What We Know About the Role of PA28αβ in Carcinogenesis

  2025cites this paper
• Systematic analysis of structural disorder in the minimal proteome of Mycoplasma pneumoniae

  2025cites this paper
• Rapid Alkalinization Factor - A Cryptide Regulating Developmental and Stress Responses.

  2025cites this paper
• TORC1 autonomously controls its spatial partitioning via the Rag GTPase tether Tco89.

  2025cites this paper
• Multifaceted Roles of MeCP2 in Cellular Regulation and Phase Separation: Implications for Neurodevelopmental Disorders, Depression, and Oxidative Stress.

  2025cites this paper
• Mechanisms of ubiquitin-independent proteasomal degradation and their roles in age-related neurodegenerative disease

  2025cites this paper
• Heterochiral and Heterotypic Self-Assembly of Intrinsically Disordered Peptides Confers Peptide Supercoils with Exceptional Proteolytic Stability

  2025cites this paper
• Design and development of multiepitope chimeric antigens by bioinformatic and bacterial based recombinant expression methods, with potential application for bovine tuberculosis serodiagnosis.

  2024cites this paper
• Testing the PEST hypothesis using relevant Rett mutations in MeCP2 E1 and E2 isoforms

  2024cites this paper
• Genetic Functionalization of Protein-Based Biomaterials via Protein Fusions

  2024cites this paper
• Primed for Interactions: Investigating the Primed Substrate Channel of the Proteasome for Improved Molecular Engagement

  2024cites this paper
• Disordered clock protein interactions and charge blocks turn an hourglass into a persistent circadian oscillator

  2024cites this paper
• Protein degradation by human 20S proteasomes elucidates the interplay between peptide hydrolysis and splicing

  2024cites this paper
• Using NMR diffusion data to validate MD models of disordered proteins: test case of N-terminal tail of histone H4.

  2023cites this paper
• Acceleration of Protein Degradation by 20S Proteasome-Binding Peptides Generated by In Vitro Artificial Evolution

  2023cites this paper
• Assembly‐driven protection from hydrolysis as key selective force during chemical evolution

  2023cites this paper
• Identification of short protein-destabilizing sequences in Arabidopsis cyclin-dependent kinase inhibitors, ICKs.

  2023cites this paper
• The early communication stages between serine proteases and enterovirus capsids in the race for viral disintegration

  2023cites this paper
• Damage sensing mediated by serine proteases Hayan and Persephone for Toll pathway activation in apoptosis-deficient flies

  2023cites this paper
• Late Embryogenesis Abundant Proteins Contribute to the Resistance of Toxoplasma gondii Oocysts against Environmental Stresses

  2023cites this paper
• Illuminating Intrinsically Disordered Proteins with Integrative Structural Biology

  2023cites this paper
• The formation of a fuzzy complex in the negative arm regulates the robustness of the circadian clock

  2022cites this paper
• Inhibiting androgen receptor splice variants with cysteine-selective irreversible covalent inhibitors to treat prostate cancer

  2022cites this paper
• A Novel Tandem-Tag Purification Strategy for Challenging Disordered Proteins

  2022cites this paper
• The C-Terminus of the PSMA3 Proteasome Subunit Preferentially Traps Intrinsically Disordered Proteins for Degradation

  2022cites this paper
• Active human full-length CDKL5 produced in the Antarctic bacterium Pseudoalteromonas haloplanktis TAC125

  2022cites this paper
• Alternative proteoforms and proteoform-dependent assemblies in humans and plants

  2022cites this paper
• Serine 13 of the human cytomegalovirus viral cyclin-dependent kinase UL97 is required for regulatory protein 14-3-3 binding and UL97 stability

  2022cites this paper
• The 26S Proteasome Switches between ATP-Dependent and -Independent Mechanisms in Response to Substrate Ubiquitination

  2022cites this paper
• An enhancer sequence in the intrinsically disordered region of FtsZ promotes polymer‐guided substrate processing by ClpXP protease

  2022cites this paper
• The 26S Proteasome Switches Between ATP‐Dependent and Independent Mechanisms in Response to Substrate Ubiquitination

  2022cites this paper
• An enhancer sequence in the intrinsically disordered region of the essential cell division protein FtsZ promotes conformation-guided substrate processing by ClpXP in Escherichia coli

  2021cites this paper
• Structural Insights into Substrate Recognition and Processing by the 20S Proteasome

  2021cites this paper
• The disordered regions of the methyltransferase SETD2 govern its function by regulating its proteolysis and phase separation

  2021cites this paper
• The Anti-Inflammatory Protein TNIP1 Is Intrinsically Disordered with Structural Flexibility Contributed by Its AHD1-UBAN Domain

  2020cites this paper
• The Benefits of Cotranslational Assembly: A Structural Perspective.

  2019cites this paper
• Structure and proteolytic susceptibility of the inhibitory C-terminal tail of cardiac troponin I.

  2019cites this paper
• Intrinsically Disordered Proteins and Their “Mysterious” (Meta)Physics

  2019cites this paper
• Cationic Intrinsically Disordered Antimicrobial Peptides (CIDAMPs) Represent a New Paradigm of Innate Defense with a Potential for Novel Anti-Infectives

  2019cites this paper
• Computational analyses, molecular dynamics, and mutagenesis studies of unprocessed form of [NiFe] hydrogenase reveal the role of disorder for efficient enzyme maturation.

  2019cites this paper
• Differential Regulation of the Three Eukaryotic mRNA Translation Initiation Factor (eIF) 4Gs by the Proteasome

  2019cites this paper
• Proteasome: a Nanomachinery of Creative Destruction

  2019cites this paper
• In Silico and In Vitro Considerations of Keratinocyte Nuclear Receptor Protein Structural Order for Improving Experimental Analysis.

  2019cites this paper
• Enhanced stability of an intrinsically disordered protein against proteolytic cleavage through interactions with silver nanoparticles

  2019cites this paper
• Hydrophobic ligands influence the structure, stability, and processing of the major cockroach allergen Bla g 1

  2019cites this paper
• Life in Phases: Intra- and Inter- Molecular Phase Transitions in Protein Solutions

  2019influential citation
• Signature activities of 20S proteasome include degradation of the ubiquitin-tag with the protein under hypoxia

  2019cites this paper
• TAU PATHOLOGY: SECRETION AND INTERNALIZATION AS THE KEY FOR UNDERSTANDING PROTEIN PROPAGATION

  2018cites this paper
• What Drives 15N Spin Relaxation in Disordered Proteins? Combined NMR/MD Study of the H4 Histone Tail.

  2018cites this paper
• Characterization of pepsin from rabbit gastric extract, its action on β-casein and the effects of lipids on proteolysis.

  2018cites this paper
• Intrinsic Disorder, Protein-Protein Interactions, and Disease.

  2018cites this paper
• MeCP2-E1 isoform is a dynamically expressed, weakly DNA-bound protein with different protein and DNA interactions compared to MeCP2-E2

  2018cites this paper
• Paradoxes and wonders of intrinsic disorder: Stability of instability

  2017cites this paper
• A 20S proteasome receptor for degradation of intrinsically disordered proteins

  2017cites this paper
• Simplified method to obtain enhanced expression of tau protein from E. coli and one-step purification by direct boiling

  2017cites this paper
• Determinants of Macromolecular Specificity from Proteomics-Derived Peptide Substrate Data

  2017cites this paper
• The Keap1–Nrf2 Stress Response Pathway Promotes Mitochondrial Hyperfusion Through Degradation of the Mitochondrial Fission Protein Drp1

  2017cites this paper
• Functional Analysis of Human Hub Proteins and Their Interactors Involved in the Intrinsic Disorder-Enriched Interactions

  2017cites this paper
• The roles of intrinsic disorder-based liquid-liquid phase transitions in the “Dr. Jekyll–Mr. Hyde” behavior of proteins involved in amyotrophic lateral sclerosis and frontotemporal lobar degeneration

  2017cites this paper
• Software tools for simultaneous data visualization and T cell epitopes and disorder prediction in proteins

  2016cites this paper
• Protein degradation, the main hub in the regulation of cellular polyamines.

  2016cites this paper
• MOLECULAR RECOGNITION ENCODED WITHIN THE PRIMARY SEQUENCE OF DISORDERED PROTEINS

  2016cites this paper
• Zinc-induced structural changes of the disordered tppp/p25 inhibits its degradation by the proteasome.

  2015cites this paper
• MAPK-induced Gab1 translocation to the plasma membrane depends on a regulated intramolecular switch.

  2015cites this paper
• Prediction and analysis of intrinsically disordered proteins.

  2015cites this paper
• Conformational Analysis of Rat Seminal Vesicle Secretory Protein 4, an Intrinsically Disordered Protein Having Interesting Pharmacological Properties

  2015cites this paper
• Emerging Roles of Disordered Sequences in RNA-Binding Proteins.

  2015cites this paper
• Biophysical Studies on BEX3, the p75NTR-Associated Cell Death Executor, Reveal a High-Order Oligomer with Partially Folded Regions

  2015cites this paper
• Paradigms of protein degradation by the proteasome.

  2014cites this paper
• The Structure and Function of Living Organisms

  2014cites this paper
• NMR methods for intrinsically disordered proteins : application to studies of NS5A protein of hepatitis C virus

  2014cites this paper
• Ubiquitin-independent proteasomal degradation.

  2014cites this paper
• Disorder- and dynamics-based regulatory mechanisms in toxin-antitoxin modules.

  2014cites this paper
• Epitope distribution in ordered and disordered protein regions. Part B - Ordered regions and disordered binding sites are targets of T- and B-cell immunity.

  2014cites this paper
• Introducing protein intrinsic disorder.

  2014cites this paper
• Effect of Trichoderma reesei Proteinases on the Affinity of an Inorganic-Binding Peptide

  2014cites this paper
• Advantages of proteins being disordered

  2014cites this paper
• Wrecked regulation of intrinsically disordered proteins in diseases: pathogenicity of deregulated regulators

  2014cites this paper
• Disordered Proteinaceous Machines

  2014cites this paper
• Proteins Directly Interacting with Mammalian 20S Proteasomal Subunits and Ubiquitin-Independent Proteasomal Degradation

  2014cites this paper
• Dual life of TPPP/p25 evolved in physiological and pathological conditions.

  2014cites this paper
• Epitope distribution in ordered and disordered protein regions - part A. T-cell epitope frequency, affinity and hydropathy.

  2014cites this paper
• Adhesive and Migratory Effects of Phosphophoryn Are Modulated by Flanking Peptides of the Integrin Binding Motif

  2014cites this paper
• Physicochemical Properties of Cells and Their Effects on Intrinsically Disordered Proteins (IDPs)

  2014cites this paper
• Long-range effects and functional consequences of stabilizing mutations in the ankyrin repeat domain of IκBα.

  2013cites this paper
• Protein conformational disorder and enzyme catalysis.

  2013cites this paper
• Order and disorder in large multi-site docking proteins of the Gab family--implications for signalling complex formation and inhibitor design strategies.

  2012cites this paper
• Conditional disorder in chaperone action.

  2012cites this paper
• Beyond ‘furballs’ and ‘dumpling soups’ – towards a molecular architecture of signaling complexes and networks

  2012cites this paper
• Conditional Disorder in Chaperone Action Protein Disorder: a Fuzzy Concept Nih Public Access Author Manuscript Is Protein Disorder the Default? Conditionally Disordered Proteins Atp-independent Chaperones: Activation by Stress-induced Unfolding the Role of Intrinsic Disorder in Small Heat Shock Prot

  year unknowncites this paper
• Never Fold to Fold Continuously: A Conundrum in Ubiquitin–Proteasome System (UPS)-Mediated Protein Quality Control (PQC)

  year unknowncites this paper
• Histone Tail

  year unknowncites this paper