Orchestrating serine/threonine phosphorylation and elucidating downstream effects by short linear motifs

Cytoplasmic short linear motifs in ACE2 and integrin β3 link SARS-CoV-2 host cell receptors to mediators of endocytosis and autophagy

(2021) Johanna Kliche et al.   Science Signaling

KinPred: A unified and sustainable approach for harnessing proteome-level human kinase-substrate predictions

(2021) Bingjie Xue et al.   PLoS Computational Biology

The dynamic mechanism of 4E-BP1 recognition and phosphorylation by mTORC1

(2021) Raphael Böhm et al.   MOLECULAR CELL

Hierarchized phosphotarget binding by the seven human 14-3-3 isoforms

(2021) Gergo Gogl et al.   Nature Communications

Phosphopeptide interactions of the Nbs1 N-terminal FHA-BRCT1/2 domains

(2021) Kyungmin Kim et al.   Scientific Reports

Phosphorylation of the LIR Domain of SCOC Modulates ATG8 Binding Affinity and Specificity

(2021) Martina Wirth et al.   JOURNAL OF MOLECULAR BIOLOGY

BARD1 reads H2A lysine 15 ubiquitination to direct homologous recombination

(2021) Jordan R. Becker et al.   NATURE

PP2A/B55α substrate recruitment as defined by the retinoblastoma-related protein p107

(2021) Holly Fowle et al.   eLife

Chatterboxes: the structural and functional diversity of cyclins

(2020) Natalie J. Tatum et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Dual Specificity PDZ- and 14-3-3-Binding Motifs: A Structural and Interactomics Study

(2020) Gergo Gogl et al.   STRUCTURE

A dynamic charge-charge interaction modulates PP2A:B56 substrate recruitment

(2020) Xinru Wang et al.   eLife

GPS 5.0: An Update on the Prediction of Kinase-specific Phosphorylation Sites in Proteins

(2020) Chenwei Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

A Non-canonical BRCT-Phosphopeptide Recognition Mechanism Underlies RhoA Activation in Cytokinesis

(2020) J. Sebastián Gómez-Cavazos et al.   CURRENT BIOLOGY

Systematic Discovery of Short Linear Motifs Decodes Calcineurin Phosphatase Signaling

(2020) Callie P. Wigington et al.   MOLECULAR CELL

Proline-Rich Motifs Control G2-CDK Target Phosphorylation and Priming an Anchoring Protein for Polo Kinase Localization

(2020) Mihkel Örd et al.   Cell Reports

The Scaffold Protein Axin Promotes Signaling Specificity within the Wnt Pathway by Suppressing Competing Kinase Reactions

(2020) Maire Gavagan et al.   Cell Systems

Comprehensive Analysis of G1 Cyclin Docking Motif Sequences that Control CDK Regulatory Potency In Vivo

(2020) Sushobhana Bandyopadhyay et al.   CURRENT BIOLOGY

CaMKK2 is inactivated by cAMP-PKA signaling and 14-3-3 adaptor proteins

(2020) Christopher G. Langendorf et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Novel phospho-switch function of delta-catenin in dendrite development

(2020) Ryan Baumert et al.   JOURNAL OF CELL BIOLOGY

Intrinsically disordered linkers control tethered kinases via effective concentration

(2020) Mateusz Dyla et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

14-3-3 binding creates a memory of kinase action by stabilizing the modified state of phospholamban

(2020) Julia Menzel et al.   Science Signaling

A new linear cyclin docking motif that mediates exclusively S‐phase CDK‐specific signaling

(2020) Ilona Faustova et al.   EMBO JOURNAL

The 14-3-3 Proteins as Important Allosteric Regulators of Protein Kinases

(2020) Veronika Obsilova et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Large‐scale survey and database of high affinity ligands for peptide recognition modules

(2020) Joan Teyra et al.   Molecular Systems Biology

The deubiquitylating enzyme USP15 regulates homologous recombination repair and cancer cell response to PARP inhibitors

(2019) Yihan Peng et al.   Nature Communications

ASPP proteins discriminate between PP1 catalytic subunits through their SH3 domain and the PP1 C-tail

(2019) M. Teresa Bertran et al.   Nature Communications

Rewiring of RSK–PDZ Interactome by Linear Motif Phosphorylation

(2019) Gergő Gógl et al.   JOURNAL OF MOLECULAR BIOLOGY

Members of the autophagy class III phosphatidylinositol 3-kinase complex I interact with GABARAP and GABARAPL1 via LIR motifs

(2019) Åsa Birna Birgisdottir et al.   Autophagy

Cyclin-Specific Docking Mechanisms Reveal the Complexity of M-CDK Function in the Cell Cycle

(2019) Mihkel Örd et al.   MOLECULAR CELL

Cyclin D-Cdk4,6 Drives Cell-Cycle Progression via the Retinoblastoma Protein’s C-Terminal Helix

(2019) Benjamin R. Topacio et al.   MOLECULAR CELL

Pellino1 specifically binds to phospho-Thr18 of p53 and is recruited to sites of DNA damage

(2019) Liang Dai et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Selective Autophagy: ATG8 Family Proteins, LIR Motifs and Cargo Receptors

(2019) Terje Johansen et al.   JOURNAL OF MOLECULAR BIOLOGY

Quantitative mapping of protein-peptide affinity landscapes using spectrally encoded beads

(2019) Huy Quoc Nguyen et al.   eLife

Cryo-EM structure of a dimeric B-Raf:14-3-3 complex reveals asymmetry in the active sites of B-Raf kinases

(2019) Yasushi Kondo et al.   SCIENCE

Nutrient regulation of mTORC1 at a glance

(2019) Kendall J. Condon et al.   JOURNAL OF CELL SCIENCE

Architecture of autoinhibited and active BRAF–MEK1–14-3-3 complexes

(2019) Eunyoung Park et al.   NATURE

ELM—the eukaryotic linear motif resource in 2020

(2019) Manjeet Kumar et al.   NUCLEIC ACIDS RESEARCH

Molecular basis for the binding and selective dephosphorylation of Na+/H+ exchanger 1 by calcineurin

(2019) Ruth Hendus-Altenburger et al.   Nature Communications

A cryptic hydrophobic pocket in the polo-box domain of the polo-like kinase PLK1 regulates substrate recognition and mitotic chromosome segregation

(2019) Pooja Sharma et al.   Scientific Reports

A Consensus Binding Motif for the PP4 Protein Phosphatase

(2019) Yumi Ueki et al.   MOLECULAR CELL

Protein Serine/Threonine Phosphatases: Keys to Unlocking Regulators and Substrates

(2018) David L. Brautigan et al.   Annual Review of Biochemistry

FBW7 targets KLF10 for ubiquitin-dependent degradation

(2018) Su Yu et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Mechanisms of MAGUK-mediated cellular junctional complex organization

(2018) Fei Ye et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Mitotic spindle association of TACC3 requires Aurora‐A‐dependent stabilization of a cryptic α‐helix

(2018) Selena G Burgess et al.   EMBO JOURNAL

Aurora B opposes PP1 function in mitosis by phosphorylating the conserved PP1-binding RVxF motif in PP1 regulatory proteins

(2018) Isha Nasa et al.   Science Signaling

Aurora B opposes PP1 function in mitosis by phosphorylating the conserved PP1-binding RVxF motif in PP1 regulatory proteins

(2018) Isha Nasa et al.   Science Signaling

FBXW7: a critical tumor suppressor of human cancers

(2018) Chien-Hung Yeh et al.   Molecular Cancer

Proteome‐wide analysis of phospho‐regulated PDZ domain interactions

(2018) Gustav N Sundell et al.   Molecular Systems Biology

Regulating a key mitotic regulator, polo‐like kinase 1 (PLK1)

(2018) Erica G. Colicino et al.   Cytoskeleton

A PxL motif promotes timely cell cycle substrate dephosphorylation by the Cdc14 phosphatase

(2018) Meghna Kataria et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Activation of the oncogenic transcription factor B-Myb via multisite phosphorylation and prolyl cis/trans isomerization

(2018) Eugen Werwein et al.   NUCLEIC ACIDS RESEARCH

Affinity and specificity of motif-based protein–protein interactions

(2018) Ylva Ivarsson et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Insights into Rad3 kinase recruitment from the crystal structure of the DNA damage checkpoint protein Rad26

(2017) Kasper Røjkjær Andersen   JOURNAL OF BIOLOGICAL CHEMISTRY

Modulators of 14-3-3 Protein–Protein Interactions

(2017) Loes M. Stevers et al.   JOURNAL OF MEDICINAL CHEMISTRY

Histidine kinases and the missing phosphoproteome from prokaryotes to eukaryotes

(2017) Kevin Adam et al.   LABORATORY INVESTIGATION

Mechanisms of mTORC1 activation by RHEB and inhibition by PRAS40

(2017) Haijuan Yang et al.   NATURE

WD40 repeat domain proteins: a novel target class?

(2017) Matthieu Schapira et al.   NATURE REVIEWS DRUG DISCOVERY

Prolyl isomerase PIN1 regulates the stability, transcriptional activity and oncogenic potential of BRD4

(2017) X Hu et al.   ONCOGENE

FHA domains: Phosphopeptide binding and beyond

(2017) Ahmad W. Almawi et al.   PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY

Synaptic Targeting and Function of SAPAPs Mediated by Phosphorylation-Dependent Binding to PSD-95 MAGUKs

(2017) Jinwei Zhu et al.   Cell Reports

PP2A-B′ holoenzyme substrate recognition, regulation and role in cytokinesis

(2017) Cheng-Guo Wu et al.   Cell Discovery

Phosphorylation of the mitochondrial autophagy receptor Nix enhances its interaction with LC3 proteins

(2017) Vladimir V. Rogov et al.   Scientific Reports

Multi-BRCT scaffolds use distinct strategies to support genome maintenance

(2016) Bingbing Wan et al.   CELL CYCLE

Cooperative autoinhibition and multi-level activation mechanisms of calcineurin

(2016) Sheng-Jie Li et al.   CELL RESEARCH

Importin α: a key molecule in nuclear transport and non-transport functions

(2016) Yoichi Miyamoto et al.   JOURNAL OF BIOCHEMISTRY

PRMT5 C-terminal Phosphorylation Modulates a 14-3-3/PDZ Interaction Switch

(2016) Alexsandra B. Espejo et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural Studies of the Nedd4 WW Domains and Their Selectivity for the Connexin43 (Cx43) Carboxyl Terminus

(2016) Gaelle Spagnol et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Conserved Motif Provides Binding Specificity to the PP2A-B56 Phosphatase

(2016) Emil Peter Thrane Hertz et al.   MOLECULAR CELL

A molecular code for endosomal recycling of phosphorylated cargos by the SNX27–retromer complex

(2016) Thomas Clairfeuille et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Expanding the PP2A Interactome by Defining a B56-Specific SLiM

(2016) Xinru Wang et al.   STRUCTURE

A molecular code for endosomal recycling of phosphorylated cargos by the SNX27–retromer complex

(2016) Thomas Clairfeuille et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Ki-67 and RepoMan mitotic phosphatases assemble via an identical, yet novel mechanism

(2016) Ganesan Senthil Kumar et al.   eLife

Uncovering the Mechanism of Forkhead-Associated Domain-Mediated TIFA Oligomerization That Plays a Central Role in Immune Responses

(2015) Jui-Hung Weng et al.   BIOCHEMISTRY

Systematic discovery of linear binding motifs targeting an ancient protein interaction surface on MAP kinases

(2015) A. Zeke et al.   Molecular Systems Biology

Quantifying domain-ligand affinities and specificities by high-throughput holdup assay

(2015) Renaud Vincentelli et al.   NATURE METHODS

Structure and dynamics of the MKK7–JNK signaling complex

(2015) Jaka Kragelj et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Centromeric binding and activity of Protein Phosphatase 4

(2015) Zoltan Lipinszki et al.   Nature Communications

Structural and Dynamic Features of F-recruitment Site Driven Substrate Phosphorylation by ERK2

(2015) Andrea Piserchio et al.   Scientific Reports

Structural Analysis of the Pin1-CPEB1 interaction and its potential role in CPEB1 degradation

(2015) Constanze Schelhorn et al.   Scientific Reports

PIKKs — the solenoid nest where partners and kinases meet

(2014) Domagoj Baretić et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

ULK1 translocates to mitochondria and phosphorylates FUNDC1 to regulate mitophagy

(2014) W. Wu et al.   EMBO REPORTS

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

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

(2014) Kirti Sharma et al.   Cell Reports

Proteasomal Degradation of Eukaryotic Elongation Factor-2 Kinase (EF2K) Is Regulated by cAMP-PKA Signaling and the SCFβTRCPUbiquitin E3 Ligase

(2013) Shari L. Wiseman et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

mTOR kinase structure, mechanism and regulation

(2013) Haijuan Yang et al.   NATURE

Phospho-Ser/Thr-binding domains: navigating the cell cycle and DNA damage response

(2013) H. Christian Reinhardt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Mechanisms and function of substrate recruitment by F-box proteins

(2013) Jeffrey R. Skaar et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Elucidating Human Phosphatase-Substrate Networks

(2013) X. Li et al.   Science Signaling

The switches.ELM Resource: A Compendium of Conditional Regulatory Interaction Interfaces

(2013) K. Van Roey et al.   Science Signaling

The Molecular Mechanism of Substrate Engagement and Immunosuppressant Inhibition of Calcineurin

(2013) Simina Grigoriu et al.   PLOS BIOLOGY

Phosphorylation meets nuclear import: a review

(2012) Jonathan D Nardozzi et al.   Cell Communication and Signaling

Protein Ser/ Thr phosphatases - the ugly ducklings of cell signalling

(2012) David L. Brautigan   FEBS Journal

Regulatory modules: Coupling protein stability to phopshoregulation during cell division

(2012) Liam J. Holt   FEBS LETTERS

Plasticity of PDZ domains in ligand recognition and signaling

(2012) Ylva Ivarsson   FEBS LETTERS

Modulation of Serines 17 and 24 in the LC3-interacting Region of Bnip3 Determines Pro-survival MitophagyversusApoptosis

(2012) Yanyan Zhu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

High-Risk Human Papillomavirus E6 Oncoproteins Interact with 14-3-3ζ in a PDZ Binding Motif-Dependent Manner

(2012) Siaw Shi Boon et al.   JOURNAL OF VIROLOGY

An Unusual Two-Step Control of CPEB Destruction by Pin1

(2012) M. Nechama et al.   MOLECULAR AND CELLULAR BIOLOGY

Specificity of Linear Motifs That Bind to a Common Mitogen-Activated Protein Kinase Docking Groove

(2012) A. Garai et al.   Science Signaling

Structural Basis for the Versatile Interactions of Smad7 with Regulator WW Domains in TGF-β Pathways

(2012) Eric Aragón et al.   STRUCTURE

The Molecular Basis for Substrate Specificity of the Nuclear NIPP1:PP1 Holoenzyme

(2012) Nichole O'Connell et al.   STRUCTURE

BRCT domains

(2011) Charles Chung Yun Leung et al.   CELL CYCLE

Cyclin-Specific Docking Motifs Promote Phosphorylation of Yeast Signaling Proteins by G1/S Cdk Complexes

(2011) Samyabrata Bhaduri et al.   CURRENT BIOLOGY

Guanylate kinase domains of the MAGUK family scaffold proteins as specific phospho-protein-binding modules

(2011) Jinwei Zhu et al.   EMBO JOURNAL

WW domain-containing proteins: Retrospectives and the future

(2011) Zaidoun Salah   Frontiers in Bioscience-Landmark

A Smad action turnover switch operated by WW domain readers of a phosphoserine code

(2011) E. Aragon et al.   GENES & DEVELOPMENT

Cdc14 Phosphatases Preferentially Dephosphorylate a Subset of Cyclin-dependent kinase (Cdk) Sites Containing Phosphoserine

(2011) Steven C. Bremmer et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

SCF TrCP mediates stress-activated MAPK-induced Cdc25B degradation

(2011) S. Uchida et al.   JOURNAL OF CELL SCIENCE

Activation and Function of the MAPKs and Their Substrates, the MAPK-Activated Protein Kinases

(2011) M. Cargnello et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Attributes of short linear motifs

(2011) Norman E. Davey et al.   Molecular BioSystems

Identification of a Phosphorylation-Dependent Nuclear Localization Motif in Interferon Regulatory Factor 2 Binding Protein 2

(2011) Allen C. T. Teng et al.   PLoS One

Phosphorylation of the Autophagy Receptor Optineurin Restricts Salmonella Growth

(2011) P. Wild et al.   SCIENCE

A Distinct Interaction Mode Revealed by the Crystal Structure of the Kinase p38  with the MAPK Binding Domain of the Phosphatase MKP5

(2011) Y.-Y. Zhang et al.   Science Signaling

Structural basis of 14-3-3 protein functions

(2011) Tomas Obsil et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Bioinformatic and experimental survey of 14-3-3-binding sites

(2010) Catherine Johnson et al.   BIOCHEMICAL JOURNAL

Polo-box domain: a versatile mediator of polo-like kinase function

(2010) Jung-Eun Park et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Spinophilin directs protein phosphatase 1 specificity by blocking substrate binding sites

(2010) Michael J Ragusa et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Phospho.ELM: a database of phosphorylation sites--update 2011

(2010) H. Dinkel et al.   NUCLEIC ACIDS RESEARCH

Structure and function of the Rad9-binding region of the DNA-damage checkpoint adaptor TopBP1

(2010) Mathieu Rappas et al.   NUCLEIC ACIDS RESEARCH

Structural and Functional Analysis of Phosphothreonine-Dependent FHA Domain Interactions

(2010) Simon Pennell et al.   STRUCTURE

The extended PP1 toolkit: designed to create specificity

(2010) Mathieu Bollen et al.   TRENDS IN BIOCHEMICAL SCIENCES

Interaction of calcineurin with substrates and targeting proteins

(2010) Huiming Li et al.   TRENDS IN CELL BIOLOGY

Serine/Threonine Phosphatases: Mechanism through Structure

(2009) Yigong Shi   CELL

Docking Motif-Guided Mapping of the Interactome of Protein Phosphatase-1

(2009) Annick Hendrickx et al.   CHEMISTRY & BIOLOGY

Emerging common themes in regulation of PIKKs and PI3Ks

(2009) Harri Lempiäinen et al.   EMBO JOURNAL

The nuts and bolts of AGC protein kinases

(2009) Laura R. Pearce et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Specific recognition of a multiply phosphorylated motif in the DNA repair scaffold XRCC1 by the FHA domain of human PNK

(2009) Ammar A. E. Ali et al.   NUCLEIC ACIDS RESEARCH

Mammalian cell-cycle regulation: several Cdks, numerous cyclins and diverse compensatory mechanisms

(2009) A Satyanarayana et al.   ONCOGENE

Polo-box domains confer target specificity to the Polo-like kinase family

(2008) Barbara C.M. van de Weerdt et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Structural Basis for Sorting Mechanism of p62 in Selective Autophagy

(2008) Yoshinobu Ichimura et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Six Classes of Nuclear Localization Signals Specific to Different Binding Grooves of Importin α

(2008) Shunichi Kosugi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Sliding Docking Interaction Is Essential for Sequential and Processive Phosphorylation of an SR Protein by SRPK1

(2008) Jacky Chi Ki Ngo et al.   MOLECULAR CELL