From conformational chaos to robust regulation: the structure and function of the multi-enzyme RNA degradosome

Characterization of Components of the Staphylococcus aureus mRNA Degradosome Holoenzyme-Like Complex

(2011) C. M. Roux et al.   JOURNAL OF BACTERIOLOGY

RNase Y in Bacillus subtilis: a Natively Disordered Protein That Is the Functional Equivalent of RNase E from Escherichia coli

(2011) M. Lehnik-Habrink et al.   JOURNAL OF BACTERIOLOGY

Polynucleotide Phosphorylase Activity May Be Modulated by Metabolites inEscherichia coli

(2011) Salima Nurmohamed et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cyclic di-GMP Activation of Polynucleotide Phosphorylase Signal-Dependent RNA Processing

(2011) Jason R. Tuckerman et al.   JOURNAL OF MOLECULAR BIOLOGY

The Base-Pairing RNA Spot 42 Participates in a Multioutput Feedforward Loop to Help Enact Catabolite Repression in Escherichia coli

(2011) Chase L. Beisel et al.   MOLECULAR CELL

Roles of the 5′-phosphate sensor domain in RNase E

(2011) Stephen M. Garrey et al.   MOLECULAR MICROBIOLOGY

Hfq and its constellation of RNA

(2011) Jörg Vogel et al.   NATURE REVIEWS MICROBIOLOGY

Structural insights into the dynamics and function of the C-terminus of the E. coli RNA chaperone Hfq

(2011) Mads Beich-Frandsen et al.   NUCLEIC ACIDS RESEARCH

Structural basis for RNA 3′-end recognition by Hfq

(2011) Evelyn Sauer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Processive Movement of MreB-Associated Cell Wall Biosynthetic Complexes in Bacteria

(2011) J. Dominguez-Escobar et al.   SCIENCE

Translation-Independent Localization of mRNA in E. coli

(2011) K. Nevo-Dinur et al.   SCIENCE

Molecular recognition betweenEscherichia colienolase and ribonuclease E

(2010) Salima Nurmohamed et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

PNPASE Regulates RNA Import into Mitochondria

(2010) Geng Wang et al.   CELL

The role of Hfq in bacterial pathogens

(2010) Yanjie Chao et al.   CURRENT OPINION IN MICROBIOLOGY

Analysis of the RNA degradosome complex in Vibrio angustum S14

(2010) Melissa A. Erce et al.   FEBS Journal

Virulence Gene Regulation by CvfA, a Putative RNase: the CvfA-Enolase Complex in Streptococcus pyogenes Links Nutritional Stress, Growth-Phase Control, and Virulence Gene Expression

(2010) S. O. Kang et al.   INFECTION AND IMMUNITY

Characterization of the RNA Degradosome of Pseudoalteromonas haloplanktis: Conservation of the RNase E-RhlB Interaction in the Gammaproteobacteria

(2010) S. Ait-Bara et al.   JOURNAL OF BACTERIOLOGY

Initiation of Decay of Bacillus subtilis rpsO mRNA by Endoribonuclease RNase Y

(2010) S. Yao et al.   JOURNAL OF BACTERIOLOGY

Self-Assembly of the Bacterial Cytoskeleton-Associated RNA Helicase B Protein into Polymeric Filamentous Structures

(2010) A. Taghbalout et al.   JOURNAL OF BACTERIOLOGY

(p)ppGpp Inhibits Polynucleotide Phosphorylase from Streptomyces but Not from Escherichia coli and Increases the Stability of Bulk mRNA in Streptomyces coelicolor

(2010) M. L. Gatewood et al.   JOURNAL OF BACTERIOLOGY

The Response Regulator SprE (RssB) Is Required for Maintaining Poly(A) Polymerase I-Degradosome Association during Stationary Phase

(2010) V. J. Carabetta et al.   JOURNAL OF BACTERIOLOGY

Euryarchaeal β-CASP Proteins with Homology to Bacterial RNase J Have 5′- to 3′-Exoribonuclease Activity

(2010) Béatrice Clouet-d'Orval et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Guanosine 5′-diphosphate 3′-diphosphate (ppGpp) as a negative modulator of polynucleotide phosphorylase activity in a ‘rare’ actinomycete

(2010) Luisa Siculella et al.   MOLECULAR MICROBIOLOGY

Hfq binding at RhlB-recognition region of RNase E is crucial for the rapid degradation of target mRNAs mediated by sRNAs in Escherichia coli

(2010) Yoshiki Ikeda et al.   MOLECULAR MICROBIOLOGY

Spatial organization of the flow of genetic information in bacteria

(2010) Paula Montero Llopis et al.   NATURE

Experimental discovery of small RNAs in Staphylococcus aureus reveals a riboregulator of central metabolism

(2010) Chantal Bohn et al.   NUCLEIC ACIDS RESEARCH

Analysis of Escherichia coli RNase E and RNase III activity in vivo using tiling microarrays

(2010) Mark B. Stead et al.   NUCLEIC ACIDS RESEARCH

An RNA degradosome assembly in Caulobacter crescentus

(2010) S. W. Hardwick et al.   NUCLEIC ACIDS RESEARCH

Unraveling new roles for minor components of the E. coli RNA degradosome

(2010) Vladimir R. Kaberdin et al.   RNA Biology

The regulatory protein RraA modulates RNA-binding and helicase activities of the E. coli RNA degradosome

(2010) M. W. Gorna et al.   RNA

Degradation of ribosomal RNA during starvation: Comparison to quality control during steady-state growth and a role for RNase PH

(2010) G. N. Basturea et al.   RNA

RNA helicases at work: binding and rearranging

(2010) Eckhard Jankowsky   TRENDS IN BIOCHEMICAL SCIENCES

What is Cooperativity?

(2009) Christopher A. Hunter et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

The Structural and Functional Diversity of Metabolite-Binding Riboswitches

(2009) Adam Roth et al.   Annual Review of Biochemistry

Identification and functional analysis of RNase E of Vibrio angustum S14 and two-hybrid analysis of its interaction partners

(2009) Melissa A. Erce et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

The Native 3D Organization of Bacterial Polysomes

(2009) Florian Brandt et al.   CELL

The Many Pathways of RNA Degradation

(2009) Jonathan Houseley et al.   CELL

Regulatory RNAs in Bacteria

(2009) Lauren S. Waters et al.   CELL

The Yeast Exosome Functions as a Macromolecular Cage to Channel RNA Substrates for Degradation

(2009) Fabien Bonneau et al.   CELL

Linking folding and binding

(2009) Peter E Wright et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Stability effects of mutations and protein evolvability

(2009) Nobuhiko Tokuriki et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

RNase Y, a novel endoribonuclease, initiates riboswitch turnover in Bacillus subtilis

(2009) Karen Shahbabian et al.   EMBO JOURNAL

Human Mitochondrial SUV3 and Polynucleotide Phosphorylase Form a 330-kDa Heteropentamer to Cooperatively Degrade Double-stranded RNA with a 3′-to-5′ Directionality

(2009) Dennis Ding-Hwa Wang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Substrate Binding and Active Site Residues in RNases E and G

(2009) Stephen M. Garrey et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Origins and activities of the eukaryotic exosome

(2009) S. Lykke-Andersen et al.   JOURNAL OF CELL SCIENCE

Crystal Structure of Escherichia coli Polynucleotide Phosphorylase Core Bound to RNase E, RNA and Manganese: Implications for Catalytic Mechanism and RNA Degradosome Assembly

(2009) Salima Nurmohamed et al.   JOURNAL OF MOLECULAR BIOLOGY

Novel Activities of Glycolytic Enzymes inBacillus subtilis

(2009) Fabian M. Commichau et al.   MOLECULAR & CELLULAR PROTEOMICS

A Convergence of rRNA and mRNA Quality Control Pathways Revealed by Mechanistic Analysis of Nonfunctional rRNA Decay

(2009) Sarah E. Cole et al.   MOLECULAR CELL

RNase E autoregulates its synthesis inEscherichia coliby binding directly to a stem-loop in therne5′ untranslated region

(2009) Alyssa Schuck et al.   MOLECULAR MICROBIOLOGY

Ribosomes initiating translation of thehbsmRNA protect it from 5′-to-3′ exoribonucleolytic degradation by RNase J1

(2009) Roula Daou-Chabo et al.   MOLECULAR MICROBIOLOGY

Rapid cleavage of RNA by RNase E in the absence of 5′ monophosphate stimulation

(2009) Louise Kime et al.   MOLECULAR MICROBIOLOGY

Specific and pleiotropic patterns of mRNA regulation by ArcZ, a conserved, Hfq-dependent small RNA

(2009) Kai Papenfort et al.   MOLECULAR MICROBIOLOGY

Co-translational mRNA decay in Saccharomyces cerevisiae

(2009) Wenqian Hu et al.   NATURE

Structure and function of the 5′→3′ exoribonuclease Rat1 and its activating partner Rai1

(2009) Song Xiang et al.   NATURE

Decapping is preceded by 3′ uridylation in a novel pathway of bulk mRNA turnover

(2009) Olivia S Rissland et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation

(2009) Verena Pfeiffer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A dominant negative mutant of the E. coli RNA helicase DbpA blocks assembly of the 50S ribosomal subunit

(2009) Lisa M. Sharpe Elles et al.   NUCLEIC ACIDS RESEARCH

SrmB, a DEAD-box helicase involved in Escherichia coli ribosome assembly, is specifically targeted to 23S rRNA in vivo

(2009) Dmitrii Trubetskoy et al.   NUCLEIC ACIDS RESEARCH

Human mitochondrial RNA turnover caught in flagranti: involvement of hSuv3p helicase in RNA surveillance

(2009) Roman J. Szczesny et al.   NUCLEIC ACIDS RESEARCH

Regulation of ribonuclease E activity by the L4 ribosomal protein of Escherichia coli

(2009) Dharam Singh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of Escherichia coli Hfq bound to polyriboadenylate RNA

(2009) T. M. Link et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Physicochemical principles that regulate the competition between functional and dysfunctional association of proteins

(2009) S. Pechmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Messenger RNA processing in Methanocaldococcus (Methanococcus) jannaschii

(2009) J. Zhang et al.   RNA

Initiation of ribosome degradation during starvation in Escherichia coli

(2009) M. A. Zundel et al.   RNA

Cell regulation: determined to signal discrete cooperation

(2009) Toby J. Gibson   TRENDS IN BIOCHEMICAL SCIENCES

Translocation and Unwinding Mechanisms of RNA and DNA Helicases

(2008) Anna Marie Pyle   Annual Review of Biophysics

Translational control by cytoplasmic polyadenylation in Xenopus oocytes

(2008) Helois E. Radford et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Function and structure of inherently disordered proteins

(2008) A Keith Dunker et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

The multienzyme architecture of eukaryotic fatty acid synthases

(2008) Marc Leibundgut et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Ribosome assembly in Escherichia coli strains lacking the RNA helicase DeaD/CsdA or DbpA

(2008) Lauri Peil et al.   FEBS Journal

A careful disorderliness in the proteome: Sites for interaction and targets for future therapies

(2008) Robert B. Russell et al.   FEBS LETTERS

Understanding eukaryotic linear motifs and their role in cell signaling and regulation

(2008) Francesca Diella   Frontiers in Bioscience-Landmark

Noncoding RNA control of the making and breaking of sugars

(2008) B. Gorke et al.   GENES & DEVELOPMENT

Riboswitch RNAs: using RNA to sense cellular metabolism

(2008) T. M. Henkin   GENES & DEVELOPMENT

RNase E Regulates the Yersinia Type 3 Secretion System

(2008) J. Yang et al.   JOURNAL OF BACTERIOLOGY

RNaseE and RNA Helicase B Play Central Roles in the Cytoskeletal Organization of the RNA Degradosome

(2008) Aziz Taghbalout et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Regulation ofEscherichia coliPolynucleotide Phosphorylase by ATP

(2008) Marta Del Favero et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A 125 kDa RNase E/G-like protein is present in plastids and is essential for chloroplast development and autotrophic growth in Arabidopsis*

(2008) Elisabeth A. Mudd et al.   JOURNAL OF EXPERIMENTAL BOTANY

Reconstitution and Analysis of the Multienzyme Escherichia coli RNA Degradosome

(2008) Jonathan A.R. Worrall et al.   JOURNAL OF MOLECULAR BIOLOGY

Small Toxic Proteins and the Antisense RNAs That Repress Them

(2008) E. M. Fozo et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Transcript stability in the protein interaction network of Escherichia coli

(2008) Sarath Chandra Janga et al.   Molecular BioSystems

Small RNA Binding to 5′ mRNA Coding Region Inhibits Translational Initiation

(2008) Marie Bouvier et al.   MOLECULAR CELL

Lipid spirals in Bacillus subtilis and their role in cell division

(2008) Imrich Barák et al.   MOLECULAR MICROBIOLOGY

A rough guide to the non-coding RNA world ofSalmonella

(2008) Jörg Vogel   MOLECULAR MICROBIOLOGY

Endonucleolytic RNA cleavage by a eukaryotic exosome

(2008) Alice Lebreton et al.   NATURE

The bacterial enzyme RppH triggers messenger RNA degradation by 5′ pyrophosphate removal

(2008) Atilio Deana et al.   NATURE

Cooperativity and biological complexity

(2008) Adrian Whitty   Nature Chemical Biology

The exosome contains domains with specific endoribonuclease, exoribonuclease and cytoplasmic mRNA decay activities

(2008) Daneen Schaeffer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structural insights into the dual activity of RNase J

(2008) Inés Li de la Sierra-Gallay et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Phylogeny.fr: robust phylogenetic analysis for the non-specialist

(2008) A. Dereeper et al.   NUCLEIC ACIDS RESEARCH

Translation initiation factor a/eIF2(- ) counteracts 5' to 3' mRNA decay in the archaeon Sulfolobus solfataricus

(2008) D. Hasenohrl et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The RNase E/G-type endoribonuclease of higher plants is located in the chloroplast and cleaves RNA similarly to the E. coli enzyme

(2008) A. Schein et al.   RNA

Crystal structure of Escherichia coli PNPase: Central channel residues are involved in processive RNA degradation

(2008) Z. Shi et al.   RNA

PNPase is a key player in the regulation of small RNAs that control the expression of outer membrane proteins

(2008) J. M. Andrade et al.   RNA

The Crystal Structure of the Escherichia coli RNase E Apoprotein and a Mechanism for RNA Degradation

(2008) Daniel J. Koslover et al.   STRUCTURE

Deep Sequencing Analysis of Small Noncoding RNA and mRNA Targets of the Global Post-Transcriptional Regulator, Hfq

(2008) Alexandra Sittka et al.   PLoS Genetics