Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae

In‐depth and 3‐dimensional exploration of the budding yeast phosphoproteome

(2021) Michael C Lanz et al.   EMBO REPORTS

Middle-Down Proteomics Reveals Dense Sites of Methylation and Phosphorylation in Arginine-Rich RNA-Binding Proteins

(2020) Sean R. Kundinger et al.   JOURNAL OF PROTEOME RESEARCH

Chaperone-Facilitated Aggregation of Thermo-Sensitive Proteins Shields Them from Degradation during Heat Stress

(2020) Margarita Cabrera et al.   Cell Reports

Condensation of Ded1p Promotes a Translational Switch from Housekeeping to Stress Protein Production

(2020) Christiane Iserman et al.   CELL

G3BP1 Is a Tunable Switch that Triggers Phase Separation to Assemble Stress Granules

(2020) Peiguo Yang et al.   CELL

RNA-Induced Conformational Switching and Clustering of G3BP Drive Stress Granule Assembly by Condensation

(2020) Jordina Guillén-Boixet et al.   CELL

Phase separation directs ubiquitination of gene-body nucleosomes

(2020) Laura D. Gallego et al.   NATURE

Building blocks are synthesized on demand during the yeast cell cycle

(2020) Kate Campbell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phosphoregulated FMRP phase separation models activity-dependent translation through bidirectional control of mRNA granule formation

(2019) Brian Tsang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Protocol Update for large-scale genome and gene function analysis with the PANTHER classification system (v.14.0)

(2019) Huaiyu Mi et al.   Nature Protocols

UBAP2L arginine methylation by PRMT1 modulates stress granule assembly

(2019) Chuyu Huang et al.   CELL DEATH AND DIFFERENTIATION

Interactive Peptide Spectral Annotator: A Versatile Web-Based Tool for Proteomic Applications

(2019) Dain R. Brademan et al.   MOLECULAR & CELLULAR PROTEOMICS

Cellular consequences of arginine methylation

(2019) Benjamin M. Lorton et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Large-scale Discovery of Substrates of the Human Kinome

(2019) Naoyuki Sugiyama et al.   Scientific Reports

Hcr1/eIF3j Is a 60S Ribosomal Subunit Recycling Accessory Factor In Vivo

(2019) David J. Young et al.   Cell Reports

Arginine methylation augments Sbp1 function in translation repression and decapping

(2019) Nupur Bhatter et al.   FEBS Journal

Nascent Pre-rRNA Sorting via Phase Separation Drives the Assembly of Dense Fibrillar Components in the Human Nucleolus

(2019) Run-Wen Yao et al.   MOLECULAR CELL

DEAD-box ATPases are global regulators of phase-separated organelles

(2019) Maria Hondele et al.   NATURE

PP4 phosphatase cooperates in recombinational DNA repair by enhancing double-strand break end resection

(2019) María Teresa Villoria et al.   NUCLEIC ACIDS RESEARCH

Crosstalk of Phosphorylation and Arginine Methylation in Disordered SRGG Repeats of Saccharomyces cerevisiae Fibrillarin and Its Association with Nucleolar Localization

(2019) Daniela-Lee Smith et al.   JOURNAL OF MOLECULAR BIOLOGY

The prion-like protein kinase Sky1 is required for efficient stress granule disassembly

(2019) Jenifer E. Shattuck et al.   Nature Communications

Investigation of Proteomic and Phosphoproteomic Responses to Signaling Network Perturbations Reveals Functional Pathway Organizations in Yeast

(2019) Jiaming Li et al.   Cell Reports

R2‐P2 rapid‐robotic phosphoproteomics enables multidimensional cell signaling studies

(2019) Mario Leutert et al.   Molecular Systems Biology

Multiple Layers of Phospho-Regulation Coordinate Metabolism and the Cell Cycle in Budding Yeast

(2019) Lichao Zhang et al.   Frontiers in Cell and Developmental Biology

Phase Separation of FUS Is Suppressed by Its Nuclear Import Receptor and Arginine Methylation

(2018) Mario Hofweber et al.   CELL

FUS Phase Separation Is Modulated by a Molecular Chaperone and Methylation of Arginine Cation-π Interactions

(2018) Seema Qamar et al.   CELL

RGG/RG Motif Regions in RNA Binding and Phase Separation

(2018) P. Andrew Chong et al.   JOURNAL OF MOLECULAR BIOLOGY

Characterization of Protein Methyltransferases Rkm1, Rkm4, Efm4, Efm7, Set5 and Hmt1 Reveals Extensive Post-Translational Modification

(2018) Daniel L. Winter et al.   JOURNAL OF MOLECULAR BIOLOGY

Protein Phase Separation: A New Phase in Cell Biology

(2018) Steven Boeynaems et al.   TRENDS IN CELL BIOLOGY

YAAM: Yeast Amino Acid Modifications Database

(2018) Leonardo Ledesma et al.   Database-The Journal of Biological Databases and Curation

The RNA-Binding Protein Scp160p Facilitates Aggregation of Many Endogenous Q/N-Rich Proteins

(2018) Matthew H.K. Cheng et al.   Cell Reports

Different Material States of Pub1 Condensates Define Distinct Modes of Stress Adaptation and Recovery

(2018) Sonja Kroschwald et al.   Cell Reports

MT-MAMS: Protein Methyltransferase Motif Analysis by Mass Spectrometry

(2018) Joshua J. Hamey et al.   JOURNAL OF PROTEOME RESEARCH

Friend or foe — post-translational modifications as regulators of phase separation and RNP granule dynamics

(2018) Mario Hofweber et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

Nab3’s localization to a nuclear granule in response to nutrient deprivation is determined by its essential prion-like domain

(2018) Travis J. Loya et al.   PLoS One

Glucose intake hampers PKA-regulated HSP90 chaperone activity

(2018) Yu-Chen Chen et al.   eLife

Ribosome-bound Pub1 modulates stop codon decoding during translation termination in yeast

(2017) Valery N. Urakov et al.   FEBS Journal

Intrinsically disordered sequences enable modulation of protein phase separation through distributed tyrosine motifs

(2017) Yuan Lin et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

MethylQuant: A Tool for Sensitive Validation of Enzyme-Mediated Protein Methylation Sites from Heavy-Methyl SILAC Data

(2017) Aidan P. Tay et al.   JOURNAL OF PROTEOME RESEARCH

Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation

(2017) Ivo A Hendriks et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation

(2017) Ivo A Hendriks et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

DNA Replication Stress Phosphoproteome Profiles Reveal Novel Functional Phosphorylation Sites on Xrs2 in Saccharomyces cerevisiae

(2016) Dongqing Huang et al.   GENETICS

Arginine methylation promotes translation repression activity of eIF4G-binding protein, Scd6

(2016) Gopalakrishna Poornima et al.   NUCLEIC ACIDS RESEARCH

Principles and Properties of Stress Granules

(2016) David S.W. Protter et al.   TRENDS IN CELL BIOLOGY

DNA Replication Stress Phosphoproteome Profiles Reveal Novel Functional Phosphorylation Sites on Xrs2 in Saccharomyces cerevisiae

(2016) Dongqing Huang et al.   GENETICS

Analysis of the Physiological Activities of Scd6 through Its Interaction with Hmt1

(2016) Pham Thi Kim Lien et al.   PLoS One

Arginine methylation in yeast proteins during stationary-phase growth and heat shock

(2015) Ted M. Lakowski et al.   AMINO ACIDS

Extracting Accurate Precursor Information for Tandem Mass Spectra by RawConverter

(2015) Lin He et al.   ANALYTICAL CHEMISTRY

Large Scale Mass Spectrometry-based Identifications of Enzyme-mediated Protein Methylation Are Subject to High False Discovery Rates

(2015) Gene Hart-Smith et al.   MOLECULAR & CELLULAR PROTEOMICS

Novel N-terminal and Lysine Methyltransferases That Target Translation Elongation Factor 1A in Yeast and Human

(2015) Joshua J. Hamey et al.   MOLECULAR & CELLULAR PROTEOMICS

RNA Controls PolyQ Protein Phase Transitions

(2015) Huaiying Zhang et al.   MOLECULAR CELL

Formation and Maturation of Phase-Separated Liquid Droplets by RNA-Binding Proteins

(2015) Yuan Lin et al.   MOLECULAR CELL

High-throughput phosphoproteomics reveals in vivo insulin signaling dynamics

(2015) Sean J Humphrey et al.   NATURE BIOTECHNOLOGY

Intrinsically disordered proteins in cellular signalling and regulation

(2015) Peter E. Wright et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Expanding the yeast protein arginine methylome

(2015) Michael Plank et al.   PROTEOMICS

Yeast proteins Gar1p, Nop1p, Npl3p, Nsr1p, and Rps2p are natively methylated and are substrates of the arginine methyltransferase Hmt1p

(2015) Daniel Yagoub et al.   PROTEOMICS

DISOPRED3: precise disordered region predictions with annotated protein-binding activity

(2014) David T. Jones et al.   BIOINFORMATICS

Stoichiometry of Saccharomyces cerevisiae Lysine Methylation: Insights into Non-histone Protein Lysine Methyltransferase Activity

(2014) Gene Hart-Smith et al.   JOURNAL OF PROTEOME RESEARCH

Functional Role of Tia1/Pub1 and Sup35 Prion Domains: Directing Protein Synthesis Machinery to the Tubulin Cytoskeleton

(2014) Xiang Li et al.   MOLECULAR CELL

Quality control of spliced mRNAs requires the shuttling SR proteins Gbp2 and Hrb1

(2014) Alexandra Hackmann et al.   Nature Communications

Regulation of splicing by SR proteins and SR protein-specific kinases

(2013) Zhihong Zhou et al.   CHROMOSOMA

Interactions Affected by Arginine Methylation in the Yeast Protein–Protein Interaction Network

(2013) Melissa A. Erce et al.   MOLECULAR & CELLULAR PROTEOMICS

Immunoaffinity Enrichment and Mass Spectrometry Analysis of Protein Methylation

(2013) Ailan Guo et al.   MOLECULAR & CELLULAR PROTEOMICS

Defining the RGG/RG Motif

(2013) Palaniraja Thandapani et al.   MOLECULAR CELL

Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation

(2013) Danielle L Swaney et al.   NATURE METHODS

Translation Initiation Factors eIF3 and HCR1 Control Translation Termination and Stop Codon Read-Through in Yeast Cells

(2013) Petra Beznosková et al.   PLoS Genetics

Protein arginine methylation inSaccharomyces cerevisiae

(2012) Jason K. K. Low et al.   FEBS Journal

Phase transitions in the assembly of multivalent signalling proteins

(2012) Pilong Li et al.   NATURE

Kinase Consensus Sequences: A Breeding Ground for Crosstalk

(2011) Heather L. Rust et al.   ACS Chemical Biology

Saccharomyces Genome Database: the genomics resource of budding yeast

(2011) J. M. Cherry et al.   NUCLEIC ACIDS RESEARCH

Phosphorylation mechanism and structure of serine-arginine protein kinases

(2010) Gourisankar Ghosh et al.   FEBS Journal

Deciphering Protein Kinase Specificity Through Large-Scale Analysis of Yeast Phosphorylation Site Motifs

(2010) J. Mok et al.   Science Signaling

Phosphoproteomic Analysis of the Mouse Brain Cytosol Reveals a Predominance of Protein Phosphorylation in Regions of Intrinsic Sequence Disorder

(2008) Mark O. Collins et al.   MOLECULAR & CELLULAR PROTEOMICS