Combined computational and experimental analysis of a complex of ribonuclease III and the regulatory macrodomain protein, YmdB

Deciphering key features in protein structures with the new ENDscript server

(2014) Xavier Robert et al.   NUCLEIC ACIDS RESEARCH

Hot-spot analysis to dissect the functional protein-protein interface of a tRNA-modifying enzyme

(2014) Stephan Jakobi et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

RNase III: Genetics and Function; Structure and Mechanism

(2013) Donald L. Court et al.   Annual Review of Genetics

Molecular Simulations of a Dynamic Protein Complex: Role of Salt-Bridges and Polar Interactions in Configurational Transitions

(2013) Liqun Zhang et al.   BIOPHYSICAL JOURNAL

Escherichia coli YmdB regulates biofilm formation independently of its role as an RNase III modulator

(2013) Taeyeon Kim et al.   BMC MICROBIOLOGY

Scalable web services for the PSIPRED Protein Analysis Workbench

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

Defining the limits of homology modeling in information-driven protein docking

(2013) J. P. G. L. M. Rodrigues et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Exploring Volatile General Anesthetic Binding to a Closed Membrane-Bound Bacterial Voltage-Gated Sodium Channel via Computation

(2013) S. G. Raju et al.   PLoS Computational Biology

Ribonuclease III mechanisms of double-stranded RNA cleavage

(2013) Allen W. Nicholson   Wiley Interdisciplinary Reviews-RNA

Dynamics in transient complexes of redox proteins

(2012) Marcellus Ubbink   BIOCHEMICAL SOCIETY TRANSACTIONS

Moonlighting is mainstream: Paradigm adjustment required

(2012) Shelley D. Copley   BIOESSAYS

RNA-Seq and RNA Immunoprecipitation Analyses of the Transcriptome of Streptomyces coelicolor Identify Substrates for RNase III

(2012) M. L. Gatewood et al.   JOURNAL OF BACTERIOLOGY

Magnesium Ion–Water Coordination and Exchange in Biomolecular Simulations

(2012) Olof Allnér et al.   Journal of Chemical Theory and Computation

Xwalk: computing and visualizing distances in cross-linking experiments

(2011) Abdullah Kahraman et al.   BIOINFORMATICS

Identification of Macrodomain Proteins as NovelO-Acetyl-ADP-ribose Deacetylases

(2011) Dawei Chen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Parallel Generalized Born Implicit Solvent Calculations with NAMD

(2011) David E. Tanner et al.   Journal of Chemical Theory and Computation

BINANA: A novel algorithm for ligand-binding characterization

(2011) Jacob D. Durrant et al.   JOURNAL OF MOLECULAR GRAPHICS & MODELLING

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

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

The macro domain protein family: Structure, functions, and their potential therapeutic implications

(2011) Weidong Han et al.   MUTATION RESEARCH-REVIEWS IN MUTATION RESEARCH

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

ANCHOR: a web server and database for analysis of protein-protein interaction binding pockets for drug discovery

(2010) L. M. C. Meireles et al.   NUCLEIC ACIDS RESEARCH

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

The courtship of proteins: Understanding the encounter complex

(2009) Marcellus Ubbink   FEBS LETTERS

Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins

(2009) Pingzhao Hu et al.   PLOS BIOLOGY

Identification of hot-spot residues in protein-protein interactions by computational docking

(2008) Solène Grosdidier et al.   BMC BIOINFORMATICS

YmdB: a stress-responsive ribonuclease-binding regulator of E. coli RNase III activity

(2008) K.-s. Kim et al.   GENES & DEVELOPMENT

MODBASE, a database of annotated comparative protein structure models and associated resources

(2008) U. Pieper et al.   NUCLEIC ACIDS RESEARCH

How well can the accuracy of comparative protein structure models be predicted?

(2008) David Eramian et al.   PROTEIN SCIENCE

Docking analysis of transient complexes: Interaction of ferredoxin-NADP+ reductase with ferredoxin and flavodoxin

(2008) Milagros Medina et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Fuzzy complexes: polymorphism and structural disorder in protein–protein interactions

(2007) Peter Tompa et al.   TRENDS IN BIOCHEMICAL SCIENCES