Spatial and temporal alterations in protein structure by EGF regulate cryptic cysteine oxidation

Enspara: Modeling molecular ensembles with scalable data structures and parallel computing

(2019) J. R. Porter et al.   JOURNAL OF CHEMICAL PHYSICS

Cooperative Changes in Solvent Exposure Identify Cryptic Pockets, Switches, and Allosteric Coupling

(2019) Justin R. Porter et al.   BIOPHYSICAL JOURNAL

Redox Systems Biology: Harnessing the Sentinels of the Cysteine Redoxome

(2019) Jason M. Held   ANTIOXIDANTS & REDOX SIGNALING

A Peroxidase Peroxiredoxin 1-Specific Redox Regulation of the Novel FOXO3 microRNA Target let-7

(2018) Barbara L. Hopkins et al.   ANTIOXIDANTS & REDOX SIGNALING

Free energy calculations on the stability of the 14-3-3ζ protein

(2018) Zuzana Jandova et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Comprehensive Redox Profiling of the Thiol Proteome ofClostridium difficile

(2018) Susanne Sievers et al.   MOLECULAR & CELLULAR PROTEOMICS

The dynamic and stress-adaptive signaling hub of 14-3-3: emerging mechanisms of regulation and context-dependent protein–protein interactions

(2018) KL Pennington et al.   ONCOGENE

KIF22 coordinates CAR and EGFR dynamics to promote cancer cell proliferation

(2018) Rosemary Pike et al.   Science Signaling

Recognition and ER Quality Control of Misfolded Formylglycine-Generating Enzyme by Protein Disulfide Isomerase

(2018) Lars Schlotawa et al.   Cell Reports

KIF22 coordinates CAR and EGFR dynamics to promote cancer cell proliferation

(2018) Rosemary Pike et al.   Science Signaling

Clinically Relevant Post-Translational Modification Analyses—Maturing Workflows and Bioinformatics Tools

(2018) Dana Pascovici et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Simulation of spontaneous G protein activation reveals a new intermediate driving GDP unbinding

(2018) Xianqiang Sun et al.   eLife

Proteomic Analyses of Cysteine Redox in High-Fat-Fed and Fasted Mouse Livers: Implications for Liver Metabolic Homeostasis

(2017) Yixing Li et al.   JOURNAL OF PROTEOME RESEARCH

Improved Method for Determining Absolute Phosphorylation Stoichiometry Using Bayesian Statistics and Isobaric Labeling

(2017) Matthew Y. Lim et al.   JOURNAL OF PROTEOME RESEARCH

Prediction of New Stabilizing Mutations Based on Mechanistic Insights from Markov State Models

(2017) Maxwell I. Zimmerman et al.   ACS Central Science

Anticipatory activation of the unfolded protein response by epidermal growth factor is required for immediate early gene expression and cell proliferation

(2016) Liqun Yu et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

EGFR Activation Leads to Cell Death Independent of PI3K/AKT/mTOR in an AD293 Cell Line

(2016) Cezary Treda et al.   PLoS One

Redox-dependent regulation of epidermal growth factor receptor signaling

(2016) David E. Heppner et al.   Redox Biology

Covalent-Allosteric Kinase Inhibitors

(2015) Jörn Weisner et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

MDTraj: A Modern Open Library for the Analysis of Molecular Dynamics Trajectories

(2015) Robert T. McGibbon et al.   BIOPHYSICAL JOURNAL

Site-Specific Proteomic Mapping Identifies Selectively Modified Regulatory Cysteine Residues in Functionally Distinct Protein Networks

(2015) Neal S. Gould et al.   CHEMISTRY & BIOLOGY

Control of the pericentrosomal H2O2level by peroxiredoxin I is critical for mitotic progression

(2015) Jung Mi Lim et al.   JOURNAL OF CELL BIOLOGY

FAST Conformational Searches by Balancing Exploration/Exploitation Trade-Offs

(2015) Maxwell I. Zimmerman et al.   Journal of Chemical Theory and Computation

ERK Mutations Confer Resistance to Mitogen-Activated Protein Kinase Pathway Inhibitors

(2014) E. M. Goetz et al.   CANCER RESEARCH

S-Glutathionylation of Cryptic Cysteines Enhances Titin Elasticity by Blocking Protein Folding

(2014) Jorge Alegre-Cebollada et al.   CELL

Proteome-wide Light/Dark Modulation of Thiol Oxidation in Cyanobacteria Revealed by Quantitative Site-specific Redox Proteomics

(2014) Jia Guo et al.   MOLECULAR & CELLULAR PROTEOMICS

Proteomic Analysis of the Epidermal Growth Factor Receptor (EGFR) Interactome and Post-translational Modifications Associated with Receptor Endocytosis in Response to EGF and Stress

(2014) Jiefei Tong et al.   MOLECULAR & CELLULAR PROTEOMICS

Acetylation dynamics and stoichiometry in Saccharomyces cerevisiae

(2014) B. T. Weinert et al.   Molecular Systems Biology

Red fluorescent genetically encoded indicator for intracellular hydrogen peroxide

(2014) Yulia G. Ermakova et al.   Nature Communications

Site-specific mapping and quantification of protein S-sulphenylation in cells

(2014) Jing Yang et al.   Nature Communications

Ultradeep Human Phosphoproteome Reveals a Distinct Regulatory Nature of Tyr and Ser/Thr-Based Signaling

(2014) Kirti Sharma et al.   Cell Reports

Molecular mechanism of oxidation-induced TDP-43 RRM1 aggregation and loss of function

(2013) Chung-ke Chang et al.   FEBS LETTERS

Resin-assisted enrichment of thiols as a general strategy for proteomic profiling of cysteine-based reversible modifications

(2013) Jia Guo et al.   Nature Protocols

AKT Facilitates EGFR Trafficking and Degradation by Phosphorylating and Activating PIKfyve

(2013) E. E. Er et al.   Science Signaling

S-nitrosylation of ERK inhibits ERK phosphorylation and induces apoptosis

(2013) Xiujing Feng et al.   Scientific Reports

Redox Regulation of Ras and Rho GTPases: Mechanism and Function

(2012) Lauren Mitchell et al.   ANTIOXIDANTS & REDOX SIGNALING

OTUB1 Co-opts Lys48-Linked Ubiquitin Recognition to Suppress E2 Enzyme Function

(2012) Yu-Chi Juang et al.   MOLECULAR CELL

Equilibrium fluctuations of a single folded protein reveal a multitude of potential cryptic allosteric sites

(2012) G. R. Bowman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assessment of Redox Changes to Hydrogen Peroxide-Sensitive Proteins During EGF Signaling

(2011) Sarah L. Cuddihy et al.   ANTIOXIDANTS & REDOX SIGNALING

Conformation-Sensing Antibodies Stabilize the Oxidized Form of PTP1B and Inhibit Its Phosphatase Activity

(2011) Aftabul Haque et al.   CELL

Reactive Oxygen Species Play an Essential Role in IGF-I Signaling and IGF-I-Induced Myocyte Hypertrophy in C2C12 Myocytes

(2011) Anastasia-Evi Handayaningsih et al.   ENDOCRINOLOGY

Regulation of protein tyrosine phosphatases by reversible oxidation

(2011) Arne Östman et al.   JOURNAL OF BIOCHEMISTRY

Quantitative Mapping of Reversible Mitochondrial Complex I Cysteine Oxidation in a Parkinson Disease Mouse Model

(2011) Steven R. Danielson et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structure and Mechanism of Human UDP-glucose 6-Dehydrogenase

(2011) Sigrid Egger et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Caspase-1 Protein Induces Apoptosis-associated Speck-like Protein Containing a Caspase Recruitment Domain (ASC)-mediated Necrosis Independently of Its Catalytic Activity

(2011) Kou Motani et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Chemistry and biology of reactive oxygen species in signaling or stress responses

(2011) Bryan C Dickinson et al.   Nature Chemical Biology

Peroxide-dependent sulfenylation of the EGFR catalytic site enhances kinase activity

(2011) Candice E Paulsen et al.   Nature Chemical Biology

Cysteine-Based Redox Switches in Enzymes

(2010) Chananat Klomsiri et al.   ANTIOXIDANTS & REDOX SIGNALING

Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

(2010) Brendan MacLean et al.   BIOINFORMATICS

Inactivation of Peroxiredoxin I by Phosphorylation Allows Localized H2O2 Accumulation for Cell Signaling

(2010) Hyun Ae Woo et al.   CELL

Targeted Quantitation of Site-Specific Cysteine Oxidation in Endogenous Proteins Using a Differential Alkylation and Multiple Reaction Monitoring Mass Spectrometry Approach

(2010) Jason M. Held et al.   MOLECULAR & CELLULAR PROTEOMICS

Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis

(2010) J. V. Olsen et al.   Science Signaling

An introduction to methods for analyzing thiols and disulfides: Reactions, reagents, and practical considerations

(2009) Rosa E. Hansen et al.   ANALYTICAL BIOCHEMISTRY

BCR-induced superoxide negatively regulates B-cell proliferation and T-cell-independent type 2 Ab responses

(2009) Sabrina M. Richards et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Nox proteins in signal transduction

(2009) David I. Brown et al.   FREE RADICAL BIOLOGY AND MEDICINE

Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma

(2009) Terri A Addona et al.   NATURE BIOTECHNOLOGY

Quantifying the global cellular thiol-disulfide status

(2009) R. E. Hansen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

EGFR Signals to mTOR Through PKC and Independently of Akt in Glioma

(2009) Q.-W. Fan et al.   Science Signaling

A generic method for assignment of reliability scores applied to solvent accessibility predictions

(2009) Bent Petersen et al.   BMC STRUCTURAL BIOLOGY

Modulation of Src Activity by Low Molecular Weight Protein Tyrosine Phosphatase During Osteoblast Differentiation

(2008) Willian F. Zambuzzi et al.   CELLULAR PHYSIOLOGY AND BIOCHEMISTRY

Glyceraldehyde-3-Phosphate Dehydrogenase Regulates Endothelin-1 Expression by a Novel, Redox-Sensitive Mechanism Involving mRNA Stability

(2008) F. Rodriguez-Pascual et al.   MOLECULAR AND CELLULAR BIOLOGY

Tumour maintenance is mediated by eNOS

(2008) Kian-Huat Lim et al.   NATURE

Reconciling the chemistry and biology of reactive oxygen species

(2008) Christine C Winterbourn   Nature Chemical Biology

P-LINCS:  A Parallel Linear Constraint Solver for Molecular Simulation

(2007) Berk Hess   Journal of Chemical Theory and Computation