Structural Dynamics of the GW182 Silencing Domain Including its RNA Recognition motif (RRM) Revealed by Hydrogen-Deuterium Exchange Mass Spectrometry

Molecular recognition of mRNA 5′ cap by 3′ poly(A)-specific ribonuclease (PARN) differs from interactions known for other cap-binding proteins

(2016) Anna Niedzwiecka et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

The Dark Matter of Biology

(2016) Jennifer L. Ross   BIOPHYSICAL JOURNAL

A Strong Neutrophil Elastase Proteolytic Fingerprint Marks the Carcinoma Tumor Proteome

(2016) Michał Kistowski et al.   MOLECULAR & CELLULAR PROTEOMICS

Structural Ensembles of Intrinsically Disordered Proteins Depend Strongly on Force Field: A Comparison to Experiment

(2015) Sarah Rauscher et al.   Journal of Chemical Theory and Computation

The I-TASSER Suite: protein structure and function prediction

(2015) Jianyi Yang et al.   NATURE METHODS

Early origin and adaptive evolution of the GW182 protein family, the key component of RNA silencing in animals

(2015) Andrzej Zielezinski et al.   RNA Biology

CABS-flex predictions of protein flexibility compared with NMR ensembles

(2014) Michal Jamroz et al.   BIOINFORMATICS

WEBnm@ v2.0: Web server and services for comparing protein flexibility

(2014) Sandhya P Tiwari et al.   BMC BIOINFORMATICS

Forces stabilizing proteins

(2014) C. Nick Pace et al.   FEBS LETTERS

The amyloid state and its association with protein misfolding diseases

(2014) Tuomas P. J. Knowles et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A bimodular nuclear localization signal assembled via an extended double-stranded RNA-binding domain acts as an RNA-sensing signal for transportin 1

(2014) P. Barraud et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Patterns of structural dynamics in RACK1 protein retained throughout evolution: A hydrogen-deuterium exchange study of three orthologs

(2014) Krzysztof Tarnowski et al.   PROTEIN SCIENCE

Cap-binding complex (CBC)

(2013) Thomas Gonatopoulos-Pournatzis et al.   BIOCHEMICAL JOURNAL

Poly(A)-specific ribonuclease (PARN): An allosterically regulated, processive and mRNA cap-interacting deadenylase

(2013) Anders Virtanen et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Single-molecule fluorescence probes dynamics of barrier crossing

(2013) Hoi Sung Chung et al.   NATURE

Hydrogen-exchange mass spectrometry for the study of intrinsic disorder in proteins

(2012) Deepa Balasubramaniam et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Analysis of the local dynamics of human insulin and a rapid-acting insulin analog by hydrogen/deuterium exchange mass spectrometry

(2012) Shiori Nakazawa et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

MetaDisorder: a meta-server for the prediction of intrinsic disorder in proteins

(2012) Lukasz P Kozlowski et al.   BMC BIOINFORMATICS

RRM–RNA recognition: NMR or crystallography…and new findings

(2012) Gerrit M Daubner et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Exploring Protein Dynamics Space: The Dynasome as the Missing Link between Protein Structure and Function

(2012) Ulf Hensen et al.   PLoS One

Protein dynamics viewed by hydrogen exchange

(2012) John J. Skinner et al.   PROTEIN SCIENCE

Intrinsically disordered proteins: a 10-year recap

(2012) Peter Tompa   TRENDS IN BIOCHEMICAL SCIENCES

Global architecture of human poly(A)-specific ribonuclease by atomic force microscopy in liquid and dynamic light scattering

(2011) Anna Niedzwiecka et al.   BIOPHYSICAL CHEMISTRY

GW182 Proteins Directly Recruit Cytoplasmic Deadenylase Complexes to miRNA Targets

(2011) Joerg E. Braun et al.   MOLECULAR CELL

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

miRNA-mediated deadenylation is orchestrated by GW182 through two conserved motifs that interact with CCR4–NOT

(2011) Marc R Fabian et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

miRNA repression involves GW182-mediated recruitment of CCR4–NOT through conserved W-containing motifs

(2011) Marina Chekulaeva et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Hydrogen exchange mass spectrometry for studying protein structure and dynamics

(2010) Lars Konermann et al.   CHEMICAL SOCIETY REVIEWS

Two PABPC1-binding sites in GW182 proteins promote miRNA-mediated gene silencing

(2010) Eric Huntzinger et al.   EMBO JOURNAL

MSTools—Web based application for visualization and presentation of HXMS data

(2010) Daniel Kavan et al.   INTERNATIONAL JOURNAL OF MASS SPECTROMETRY

Interactions between PTB RRMs Induce Slow Motions and Increase RNA Binding Affinity

(2010) Caroline M. Maynard et al.   JOURNAL OF MOLECULAR BIOLOGY

pGenTHREADER and pDomTHREADER: new methods for improved protein fold recognition and superfamily discrimination

(2009) Anna Lobley et al.   BIOINFORMATICS

The Silencing Domain of GW182 Interacts with PABPC1 To Promote Translational Repression and Degradation of MicroRNA Targets and Is Required for Target Release

(2009) L. Zekri et al.   MOLECULAR AND CELLULAR BIOLOGY

Mammalian miRNA RISC Recruits CAF1 and PABP to Affect PABP-Dependent Deadenylation

(2009) Marc R. Fabian et al.   MOLECULAR CELL

Protein structure prediction on the Web: a case study using the Phyre server

(2009) Lawrence A Kelley et al.   Nature Protocols

The RRM domain in GW182 proteins contributes to miRNA-mediated gene silencing

(2009) Ana Eulalio et al.   NUCLEIC ACIDS RESEARCH

Importance of the C-terminal domain of the human GW182 protein TNRC6C for translational repression

(2009) J. T. Zipprich et al.   RNA

Mammalian GW182 contains multiple Argonaute-binding sites and functions in microRNA-mediated translational repression

(2009) K. Takimoto et al.   RNA

A C-terminal silencing domain in GW182 is essential for miRNA function

(2009) A. Eulalio et al.   RNA

The C-terminal domains of human TNRC6A, TNRC6B, and TNRC6C silence bound transcripts independently of Argonaute proteins

(2009) D. Lazzaretti et al.   RNA

Structural Basis of m7GpppG Binding to Poly(A)-Specific Ribonuclease

(2009) Mousheng Wu et al.   STRUCTURE

Structural Changes of eIF4E upon Binding to the mRNA 5′ Monomethylguanosine and Trimethylguanosine Cap†

(2008) Izabela Rutkowska-Wlodarczyk et al.   BIOCHEMISTRY

RNA recognition motifs: boring? Not quite

(2008) Antoine Cléry et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Identification of GW182 and its novel isoform TNGW1 as translational repressors in Ago2-mediated silencing

(2008) S. Li et al.   JOURNAL OF CELL SCIENCE

Crystal Structure of the RRM Domain of Poly(A)-Specific Ribonuclease Reveals a Novel m7G-Cap-Binding Mode

(2008) Thomas Monecke et al.   JOURNAL OF MOLECULAR BIOLOGY

Diverse Role of Three Tyrosines in Binding of the RNA 5′ Cap to the Human Nuclear Cap Binding Complex

(2008) Remigiusz Worch et al.   JOURNAL OF MOLECULAR BIOLOGY

GW182 interaction with Argonaute is essential for miRNA-mediated translational repression and mRNA decay

(2008) Ana Eulalio et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Molecular characterization of human Argonaute-containing ribonucleoprotein complexes and their bound target mRNAs

(2008) M. Landthaler et al.   RNA