Structure, Function and Substrates of Clp AAA+ protease systems in cyanobacteria, plastids and apicoplasts; a comparative analysis

Deciphering proteolysis pathways for the error‐prone DNA polymerase in cyanobacteria

(2020) Haojie Jin et al.   ENVIRONMENTAL MICROBIOLOGY

Processive extrusion of polypeptide loops by a Hsp100 disaggregase

(2020) Mario J. Avellaneda et al.   NATURE

Protein Import Motors in Chloroplasts: On the Role of Chaperones

(2020) Hsou-min Li et al.   PLANT CELL

Reply: The Revised Model for Chloroplast Protein Import

(2020) Masato Nakai   PLANT CELL

VIPP2 interacts with VIPP1 and HSP22E/F at chloroplast membranes and modulates a retrograde signal for HSP22E/F gene expression

(2020) Jasmine Theis et al.   PLANT CELL AND ENVIRONMENT

Reassessing enzyme kinetics: Considering protease-as-substrate interactions in proteolytic networks

(2020) Meghan C. Ferrall-Fairbanks et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CUL3BPM E3 ubiquitin ligases regulate MYC2, MYC3, and MYC4 stability and JA responses

(2020) Jose Manuel Chico et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An allosteric switch regulates Mycobacterium tuberculosis ClpP1P2 protease function as established by cryo-EM and methyl-TROSY NMR

(2020) Siavash Vahidi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A mevalonate bypass system facilitates elucidation of plastid biology in malaria parasites

(2020) Russell P. Swift et al.   PLoS Pathogens

A processive rotary mechanism couples substrate unfolding and proteolysis in the ClpXP degradation machinery

(2020) Zev A Ripstein et al.   eLife

AAA+ proteins

(2020) Thiago V. Seraphim et al.   CURRENT BIOLOGY

The unfoldase ClpC1 of Mycobacterium tuberculosis regulates the expression of a distinct subset of proteins having intrinsically disordered termini

(2020) Ajitesh Lunge et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mechanisms, regulation and functions of the unfolded protein response

(2020) Claudio Hetz et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Conformational plasticity of the ClpAP AAA+ protease couples protein unfolding and proteolysis

(2020) Kyle E. Lopez et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Plastid biogenesis in malaria parasites requires the interactions and catalytic activity of the Clp proteolytic system

(2020) Anat Florentin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular Chaperones and Proteolytic Machineries Regulate Protein Homeostasis in Aging Cells

(2020) Boris Margulis et al.   Cells

Structural basis of ClpXP recognition and unfolding of ssrA-tagged substrates

(2020) Xue Fei et al.   eLife

Oxylipins in plastidial retrograde signaling

(2020) Paula Muñoz et al.   Redox Biology

N-degron and C-degron pathways of protein degradation

(2019) Alexander Varshavsky   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Proteome-Scale Mapping of Perturbed Proteostasis in Living Cells

(2019) Isabel Lam et al.   Cold Spring Harbor Perspectives in Biology

Discovery of AAA+ Protease Substrates through Trapping Approaches

(2019) Jui-Yun Rei Liao et al.   TRENDS IN BIOCHEMICAL SCIENCES

N‐degron specificity of chloroplast ClpS1 in plants

(2019) Cyrille Montandon et al.   FEBS LETTERS

In Vivo Trapping of Proteins Interacting with the Chloroplast CLPC1 Chaperone: Potential Substrates and Adaptors

(2019) Cyrille Montandon et al.   JOURNAL OF PROTEOME RESEARCH

Sensing β‐carotene oxidation in photosystem II to master plant stress tolerance

(2019) Stefano D'Alessandro et al.   NEW PHYTOLOGIST

Activator of one protease transforms into inhibitor of another in response to nutritional signals

(2019) Jinki Yeom et al.   GENES & DEVELOPMENT

Jasmonate and auxin perception: how plants keep F-boxes in check

(2019) Clara Williams et al.   JOURNAL OF EXPERIMENTAL BOTANY

The MATH-BTB BPM3 and BPM5 subunits of Cullin3-RING E3 ubiquitin ligases target PP2CA and other clade A PP2Cs for degradation

(2019) Jose Julian et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

N-Degron Pathways in Plastids

(2019) Imen Bouchnak et al.   TRENDS IN PLANT SCIENCE

The GluTR-binding protein is the heme-binding factor for feedback control of glutamyl-tRNA reductase

(2019) Andreas S Richter et al.   eLife

Metabolic Innovations Underpinning the Origin and Diversification of the Diatom Chloroplast

(2019) Nonoyama et al.   Biomolecules

Co-suppression of NbClpC1 and NbClpC2 alters plant morphology with changed hormone levels in Nicotiana benthamiana

(2019) Md. Sarafat Ali et al.   PLANT CELL REPORTS

The expanded specificity and physiological role of a widespread N-degron recognin

(2019) Xiaohui Gao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Manipulation of Plastidial Protein Quality Control Components as a New Strategy to Improve Carotenoid Contents in Tomato Fruit

(2019) Lucio D’Andrea et al.   Frontiers in Plant Science

The molecular principles governing the activity and functional diversity of AAA+ proteins

(2019) Cristina Puchades et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Cryo-EM structure of the ClpXP protein degradation machinery

(2019) Christos Gatsogiannis et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Mars1 kinase confers photoprotection through signaling in the chloroplast unfolded protein response

(2019) Karina Perlaza et al.   eLife

The role of lyases, NblA and NblB proteins and bilin chromophore transfer in restructuring the cyanobacterial light‐harvesting complex ‡

(2019) Ping‐Ping Hu et al.   PLANT JOURNAL

Regulated Proteolysis in Bacteria

(2018) Samar A. Mahmoud et al.   Annual Review of Biochemistry

Mechanical Protein Unfolding and Degradation

(2018) Adrian O. Olivares et al.   Annual Review of Physiology

Phylogeny-dominant classification of J-proteins in Arabidopsis thaliana and Brassica oleracea

(2018) Bin Zhang et al.   GENOME

Chloroplast Protein Turnover: The Influence of Extraplastidic Processes, Including Autophagy

(2018) Masanori Izumi et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Mitochondrial Proteostasis in the Context of Cellular and Organismal Health and Aging

(2018) Erica A Moehle et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Interference with Clp protease impairs carotenoid accumulation during tomato fruit ripening

(2018) Lucio D’Andrea et al.   JOURNAL OF EXPERIMENTAL BOTANY

Phylogenetic analysis predicts structural divergence for proteobacterial ClpC proteins

(2018) Justin M. Miller et al.   JOURNAL OF STRUCTURAL BIOLOGY

Decomposition of cyanobacterial light harvesting complexes: NblA-dependent role of the bilin lyase homolog NblB

(2018) Mali Levi et al.   PLANT JOURNAL

Control of Retrograde Signaling by Rapid Turnover of GENOMES UNCOUPLED1

(2018) Guo-Zhang Wu et al.   PLANT PHYSIOLOGY

Features of cues and processes during chloroplast-mediated retrograde signaling in the alga Chlamydomonas

(2018) Giuseppina Rea et al.   PLANT SCIENCE

Engineering posttranslational proofreading to discriminate nonstandard amino acids

(2018) Aditya M. Kunjapur et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

FtsH Protease in the Thylakoid Membrane: Physiological Functions and the Regulation of Protease Activity

(2018) Yusuke Kato et al.   Frontiers in Plant Science

Roles for ClpXP in regulating the circadian clock inSynechococcus elongatus

(2018) Susan E. Cohen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Control of plastidial metabolism by the Clp protease complex

(2018) Manuel Rodriguez-Concepcion et al.   JOURNAL OF EXPERIMENTAL BOTANY

Extreme variation in rates of evolution in the plastid Clp protease complex

(2018) Alissa M. Williams et al.   PLANT JOURNAL

Sequestration from Protease Adaptor Confers Differential Stability to Protease Substrate

(2017) Jinki Yeom et al.   MOLECULAR CELL

Essentials of Proteolytic Machineries in Chloroplasts

(2017) Kenji Nishimura et al.   Molecular Plant

Novel DNAJ-related proteins in Arabidopsis thaliana

(2017) Pablo Pulido et al.   NEW PHYTOLOGIST

The proteolysis adaptor, NblA, binds to the N-terminus of β-phycocyanin: Implications for the mechanism of phycobilisome degradation

(2017) Amelia Y. Nguyen et al.   PHOTOSYNTHESIS RESEARCH

The Plastid and Mitochondrial Peptidase Network inArabidopsis thaliana: A Foundation for Testing Genetic Interactions and Functions in Organellar Proteostasis

(2017) Kristina Majsec et al.   PLANT CELL

Temporal Proteomics of Inducible RNAi Lines of Clp Protease Subunits Identifies Putative Protease Substrates

(2017) Juan C. Moreno et al.   PLANT PHYSIOLOGY

Crystal structures reveal N-terminal Domain of Arabidopsis thaliana ClpD to be highly divergent from that of ClpC1

(2017) Chinmayee Mohapatra et al.   Scientific Reports

PfClpC Is an Essential Clp Chaperone Required for Plastid Integrity and Clp Protease Stability in Plasmodium falciparum

(2017) Anat Florentin et al.   Cell Reports

Interference with plastome gene expression and Clp protease activity in Arabidopsis triggers a chloroplast unfolded protein response to restore protein homeostasis

(2017) Ernesto Llamas et al.   PLoS Genetics

Regulatory coiled-coil domains promote head-to-head assemblies of AAA+ chaperones essential for tunable activity control

(2017) Marta Carroni et al.   eLife

Learning the Languages of the Chloroplast: Retrograde Signaling and Beyond

(2016) Kai Xun Chan et al.   Annual Review of Plant Biology

Retrograde signaling: Organelles go networking

(2016) Tatjana Kleine et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

The N-end rule adaptor protein ClpS from Plasmodium falciparum exhibits broad substrate specificity

(2016) Ju Lin Tan et al.   FEBS LETTERS

Systemic analysis of stress transcriptomics of Synechocystis reveals common stress genes and their universal triggers

(2016) M. A. Sinetova et al.   Molecular BioSystems

Posttranslational Control of ALA Synthesis Includes GluTR Degradation by Clp Protease and Stabilization by GluTR-Binding Protein

(2016) Janina Apitz et al.   PLANT PHYSIOLOGY

Chloroplast Proteases: Updates on Proteolysis within and across Suborganellar Compartments

(2016) Kenji Nishimura et al.   PLANT PHYSIOLOGY

Structure of a putative ClpS N-end rule adaptor protein from the malaria pathogenPlasmodium falciparum

(2016) Andrew P. AhYoung et al.   PROTEIN SCIENCE

Structural Basis of an N-Degron Adaptor with More Stringent Specificity

(2016) Benjamin J. Stein et al.   STRUCTURE

Specific Hsp100 Chaperones Determine the Fate of the First Enzyme of the Plastidial Isoprenoid Pathway for Either Refolding or Degradation by the Stromal Clp Protease in Arabidopsis

(2016) Pablo Pulido et al.   PLoS Genetics

Insights into the Cyanobacterial Deg/HtrA Proteases

(2016) Otilia Cheregi et al.   Frontiers in Plant Science

Protein Maturation and Proteolysis in Plant Plastids, Mitochondria, and Peroxisomes

(2015) Klaas J. van Wijk   Annual Review of Plant Biology

Organization, function and substrates of the essential Clp protease system in plastids

(2015) Kenji Nishimura et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Twenty years of theMEROPSdatabase of proteolytic enzymes, their substrates and inhibitors

(2015) Neil D. Rawlings et al.   NUCLEIC ACIDS RESEARCH

The proteolysis adaptor, NblA, is essential for degradation of the core pigment of the cyanobacterial light-harvesting complex

(2015) Eleonora Sendersky et al.   PLANT JOURNAL

Dynamics of the ClpP serine protease: A model for self-compartmentalized proteases

(2014) Kaiyin Liu et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Degradation of Phycobilisomes inSynechocystissp. PCC6803

(2014) Antje Baier et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cyanobacterial heat-shock response: role and regulation of molecular chaperones

(2014) H. Rajaram et al.   MICROBIOLOGY-SGM

Conditional Depletion of the Chlamydomonas Chloroplast ClpP Protease Activates Nuclear Genes Involved in Autophagy and Plastid Protein Quality Control

(2014) S. Ramundo et al.   PLANT CELL

The proteolysis adaptor, NblA, initiates protein pigment degradation by interacting with the cyanobacterial light-harvesting complexes

(2014) Eleonora Sendersky et al.   PLANT JOURNAL

Evolution and significance of the Lon gene family in Arabidopsis organelle biogenesis and energy metabolism

(2014) Stamatis Rigas et al.   Frontiers in Plant Science

The Algal Past and Parasite Present of the Apicoplast

(2013) Giel G. van Dooren et al.   Annual Review of Microbiology

The N-degradome ofEscherichia coli

(2013) Matthew A. Humbard et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Biogenesis and homeostasis of chloroplasts and other plastids

(2013) Paul Jarvis et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

ClpS1 Is a Conserved Substrate Selector for the Chloroplast Clp Protease System in Arabidopsis

(2013) K. Nishimura et al.   PLANT CELL

Arabidopsis J-Protein J20 Delivers the First Enzyme of the Plastidial Isoprenoid Pathway to Protein Quality Control

(2013) P. Pulido et al.   PLANT CELL

Interaction specificity between the chaperone and proteolytic components of the cyanobacterial Clp protease

(2012) Anders Tryggvesson et al.   BIOCHEMICAL JOURNAL

Structural Insights into the Inactive Subunit of the Apicoplast-localized Caseinolytic Protease Complex ofPlasmodium falciparum

(2012) Majida El Bakkouri et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A chloroplast-targeted DnaJ protein AtJ8 is negatively regulated by light and has rapid turnover in darkness

(2011) Kun-Ming Chen et al.   JOURNAL OF PLANT PHYSIOLOGY

Subunit Stoichiometry, Evolution, and Functional Implications of an Asymmetric Plant Plastid ClpP/R Protease Complex inArabidopsis

(2011) Paul Dominic B. Olinares et al.   PLANT CELL

A high resolution map of a cyanobacterial transcriptome

(2011) Vikram Vijayan et al.   GENOME BIOLOGY

Small chloroplast-targeted DnaJ proteins are involved in optimization of photosynthetic reactions in Arabidopsis thaliana

(2010) Kun-Ming Chen et al.   BMC PLANT BIOLOGY

The Clp Chaperones and Proteases of the Human Malaria Parasite Plasmodium falciparum

(2010) Majida El Bakkouri et al.   JOURNAL OF MOLECULAR BIOLOGY

The bacterial N-end rule pathway: expect the unexpected

(2010) D. A. Dougan et al.   MOLECULAR MICROBIOLOGY

Arabidopsis thaliana J-class heat shock proteins: cellular stress sensors

(2009) Vinoth Babu V. Rajan et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

ClpXP protease degrades the cytoskeletal protein, FtsZ, and modulates FtsZ polymer dynamics

(2009) J. L. Camberg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural, Functional, and Mutational Analysis of the NblA Protein Provides Insight into Possible Modes of Interaction with the Phycobilisome

(2008) Monica Dines et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Chloroplast DnaJ Homolog CDJ1 of Chlamydomonas reinhardtii Is Part of a Multichaperone Complex Containing HSP70B, CGE1, and HSP90C

(2008) F. Willmund et al.   PLANT PHYSIOLOGY