Acidic C-terminal domains autoregulate the RNA chaperone Hfq

Application of the MAFFT sequence alignment program to large data—reexamination of the usefulness of chained guide trees

(2016) Kazunori D. Yamada et al.   BIOINFORMATICS

The new (dis)order in RNA regulation

(2016) Aino I. Järvelin et al.   Cell Communication and Signaling

Hfq: the flexible RNA matchmaker

(2016) Taylor B Updegrove et al.   CURRENT OPINION IN MICROBIOLOGY

Hfq: a multifaceted RNA chaperone involved in virulence

(2016) Joana R Feliciano et al.   Future Microbiology

Arginine Patch Predicts the RNA Annealing Activity of Hfq from Gram-Negative and Gram-Positive Bacteria

(2016) Amy Zheng et al.   JOURNAL OF MOLECULAR BIOLOGY

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

C-terminal domain of the RNA chaperone Hfq drives sRNA competition and release of target RNA

(2016) Andrew Santiago-Frangos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Disordered nucleiome: Abundance of intrinsic disorder in the DNA- and RNA-binding proteins in 1121 species from Eukaryota, Bacteria and Archaea

(2016) Chen Wang et al.   PROTEOMICS

Light-Triggered RNA Annealing by an RNA Chaperone

(2015) Subrata Panja et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Structure of Bacterial Regulatory RNAs Determines Their Performance in Competition for the Chaperone Protein Hfq

(2015) Ewelina M. Małecka et al.   BIOCHEMISTRY

New insight into the structure and function of Hfq C-terminus

(2015) Emilie Fortas et al.   BIOSCIENCE REPORTS

Alternative Hfq-sRNA interaction modes dictate alternative mRNA recognition

(2015) D. J. Schu et al.   EMBO JOURNAL

Combined Covalent-Electrostatic Model of Hydrogen Bonding Improves Structure Prediction with Rosetta

(2015) Matthew J. O’Meara et al.   Journal of Chemical Theory and Computation

Paradoxical suppression of small RNA activity at high Hfq concentrations due to random-order binding

(2015) Shiori Sagawa et al.   NUCLEIC ACIDS RESEARCH

Effects of Hfq on the conformation and compaction of DNA

(2015) Kai Jiang et al.   NUCLEIC ACIDS RESEARCH

Tracking the Elusive Function of Bacillus subtilis Hfq

(2015) Tatiana Rochat et al.   PLoS One

Functional Advantages of Conserved Intrinsic Disorder in RNA-Binding Proteins

(2015) Mihaly Varadi et al.   PLoS One

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

(2014) David T. Jones et al.   BIOINFORMATICS

UniProt: a hub for protein information

(2014)   NUCLEIC ACIDS RESEARCH

RNA binding by Hfq and ring-forming (L)Sm proteins

(2014) Oliver Weichenrieder   RNA Biology

Recognition of U-rich RNA by Hfq from the Gram-positive pathogenListeria monocytogenes

(2014) Alexander R. Kovach et al.   RNA

Evolutionary patterns of Escherichia coli small RNAs and their regulatory interactions

(2014) A. Peer et al.   RNA

Recognition of the small regulatory RNA RydC by the bacterial Hfq protein

(2014) Daniela Dimastrogiovanni et al.   eLife

Mutations in Interaction Surfaces Differentially Impact E. coli Hfq Association with Small RNAs and Their mRNA Targets

(2013) Aixia Zhang et al.   JOURNAL OF MOLECULAR BIOLOGY

Protein Expansion Is Primarily due to Indels in Intrinsically Disordered Regions

(2013) S. Light et al.   MOLECULAR BIOLOGY AND EVOLUTION

Crystal structures of the Lsm complex bound to the 3′ end sequence of U6 small nuclear RNA

(2013) Lijun Zhou et al.   NATURE

Conserved arginines on the rim of Hfq catalyze base pair formation and exchange

(2013) Subrata Panja et al.   NUCLEIC ACIDS RESEARCH

Scalable web services for the PSIPRED Protein Analysis Workbench

(2013) Daniel W. A. Buchan et al.   NUCLEIC ACIDS RESEARCH

Relaxation of backbone bond geometry improves protein energy landscape modeling

(2013) Patrick Conway et al.   PROTEIN SCIENCE

Archaeal and eukaryotic homologs of Hfq

(2013) Cameron Mura et al.   RNA Biology

Cycling of RNAs on Hfq

(2013) E. Gerhart H. Wagner   RNA Biology

Structure and Intrinsic Disorder in Protein Autoinhibition

(2013) Travis Trudeau et al.   STRUCTURE

Lack of interchangeability of Hfq-like proteins

(2012) Tatiana Rochat et al.   BIOCHIMIE

The bacterial protein Hfq: much more than a mere RNA-binding factor

(2012) Patricio Sobrero et al.   CRITICAL REVIEWS IN MICROBIOLOGY

Mechanisms for Defining Supercoiling Set Point of DNA Gyrase Orthologs

(2012) Elsa M. Tretter et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Hexamer to Monomer Equilibrium of E. coli Hfq in Solution and Its Impact on RNA Annealing

(2012) Subrata Panja et al.   JOURNAL OF MOLECULAR BIOLOGY

Characterization of Vibrio cholerae Hfq Provides Novel Insights into the Role of the Hfq C-Terminal Region

(2012) Helen A. Vincent et al.   JOURNAL OF MOLECULAR BIOLOGY

Hfq proximity and orientation controls RNA annealing

(2012) Subrata Panja et al.   NUCLEIC ACIDS RESEARCH

Requirement of upstream Hfq-binding (ARN)x elements in glmS and the Hfq C-terminal region for GlmS upregulation by sRNAs GlmZ and GlmY†

(2012) Nilshad N. Salim et al.   NUCLEIC ACIDS RESEARCH

Small RNA binding to the lateral surface of Hfq hexamers and structural rearrangements upon mRNA target recognition

(2012) E. Sauer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Abnormal SDS-PAGE migration of cytosolic proteins can identify domains and mechanisms that control surfactant binding

(2012) Yunhua Shi et al.   PROTEIN SCIENCE

The functional Hfq-binding module of bacterial sRNAs consists of a double or single hairpin preceded by a U-rich sequence and followed by a 3' poly(U) tail

(2012) H. Ishikawa et al.   RNA

Structural analysis of full-length Hfq fromEscherichia coli

(2011) Mads Beich-Frandsen et al.   Acta Crystallographica Section F-Structural Biology and Crystallization Communications

Cooperation of Escherichia coli Hfq hexamers in DsrA binding

(2011) W. Wang et al.   GENES & DEVELOPMENT

Regulation by Small RNAs in Bacteria: Expanding Frontiers

(2011) Gisela Storz et al.   MOLECULAR CELL

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

Crystal structure of Hfq from Bacillus subtilis in complex with SELEX-derived RNA aptamer: insight into RNA-binding properties of bacterial Hfq

(2011) Tatsuhiko Someya et al.   NUCLEIC ACIDS RESEARCH

Rapid binding and release of Hfq from ternary complexes during RNA annealing

(2011) Julia F. Hopkins et al.   NUCLEIC ACIDS RESEARCH

Benchmarking and Analysis of Protein Docking Performance in Rosetta v3.2

(2011) Sidhartha Chaudhury et al.   PLoS One

PolyU tail of rho-independent terminator of bacterial small RNAs is essential for Hfq action

(2011) Hironori Otaka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Major role for mRNA binding and restructuring in sRNA recruitment by Hfq

(2011) T. J. Soper et al.   RNA

Expression, crystallization and preliminary crystallographic analysis of RNA-binding protein Hfq (YmaH) fromBacillus subtilisin complex with an RNA aptamer

(2010) Seiki Baba et al.   Acta Crystallographica Section F-Structural Biology and Crystallization Communications

E. coli DNA associated with isolated Hfq interacts with Hfq's distal surface and C-terminal domain

(2010) Taylor B. Updegrove et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

PyRosetta: a script-based interface for implementing molecular modeling algorithms using Rosetta

(2010) S. Chaudhury et al.   BIOINFORMATICS

Regulation of Single-stranded DNA Binding by the C Termini of Escherichia coli Single-stranded DNA-binding (SSB) Protein

(2010) Alexander G. Kozlov et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

C-Terminally Truncated Derivatives of Escherichia coli Hfq Are Proficient in Riboregulation

(2010) Anders Steno Olsen et al.   JOURNAL OF MOLECULAR BIOLOGY

Characterization of a Heme-Regulated Non-Coding RNA Encoded by the prrF Locus of Pseudomonas aeruginosa

(2010) Amanda G. Oglesby-Sherrouse et al.   PLoS One

Hfq Is a Global Regulator That Controls the Pathogenicity of Staphylococcus aureus

(2010) Yu Liu et al.   PLoS One

Rapid E2-E3 Assembly and Disassembly Enable Processive Ubiquitylation of Cullin-RING Ubiquitin Ligase Substrates

(2009) Gary Kleiger et al.   CELL

The Acinetobacter baylyi hfq Gene Encodes a Large Protein with an Unusual C Terminus

(2009) D. Schilling et al.   JOURNAL OF BACTERIOLOGY

C-terminal Domain Modulates the Nucleic Acid Chaperone Activity of Human T-cell Leukemia Virus Type 1 Nucleocapsid Protein via an Electrostatic Mechanism

(2009) Dominic F. Qualley et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Comparing Models of Evolution for Ordered and Disordered Proteins

(2009) C. J. Brown et al.   MOLECULAR BIOLOGY AND EVOLUTION

A conserved small RNA promotes silencing of the outer membrane protein YbfM

(2009) Anders Aamann Rasmussen et al.   MOLECULAR MICROBIOLOGY

Effect of salt and RNA structure on annealing and strand displacement by Hfq

(2009) J. F. Hopkins et al.   NUCLEIC ACIDS RESEARCH

Defining a role for Hfq in Gram-positive bacteria: evidence for Hfq-dependent antisense regulation in Listeria monocytogenes

(2009) Jesper Sejrup Nielsen et al.   NUCLEIC ACIDS RESEARCH

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

Detergent binding explains anomalous SDS-PAGE migration of membrane proteins

(2009) Arianna Rath et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Moraxella catarrhalis Expresses an Unusual Hfq Protein

(2008) A. S. Attia et al.   INFECTION AND IMMUNITY

Natural selection of protein structural and functional properties: a SNP perspective

(2008) Jinfeng Liu et al.   GENOME BIOLOGY