Published in Proteins on June 17, 2013
Thiol-based redox switches in prokaryotes. Biol Chem (2015) 0.88
The anti-sigma factor RsrA responds to oxidative stress by reburying its hydrophobic core. Nat Commun (2016) 0.78
Protein redox chemistry: post-translational cysteine modifications that regulate signal transduction and drug pharmacology. Front Pharmacol (2014) 0.76
Using quaternions to calculate RMSD. J Comput Chem (2004) 2.93
A kinematic view of loop closure. J Comput Chem (2004) 2.03
Mycothiol regulates and is regulated by a thiol-specific antisigma factor RsrA and sigma(R) in Streptomyces coelicolor. Mol Microbiol (2008) 1.80
IscR acts as an activator in response to oxidative stress for the suf operon encoding Fe-S assembly proteins. Mol Microbiol (2006) 1.72
Pulsating tubules from noncovalent macrocycles. Science (2012) 1.59
A reducing system of the superoxide sensor SoxR in Escherichia coli. EMBO J (2003) 1.53
Induction of the sufA operon encoding Fe-S assembly proteins by superoxide generators and hydrogen peroxide: involvement of OxyR, IHF and an unidentified oxidant-responsive factor. Mol Microbiol (2004) 1.47
Community-wide assessment of protein-interface modeling suggests improvements to design methodology. J Mol Biol (2011) 1.40
Redox-dependent changes in RsrA, an anti-sigma factor in Streptomyces coelicolor: zinc release and disulfide bond formation. J Mol Biol (2004) 1.39
Graded expression of zinc-responsive genes through two regulatory zinc-binding sites in Zur. Proc Natl Acad Sci U S A (2011) 1.33
Nur, a nickel-responsive regulator of the Fur family, regulates superoxide dismutases and nickel transport in Streptomyces coelicolor. Mol Microbiol (2006) 1.29
The zinc-responsive regulator Zur controls a zinc uptake system and some ribosomal proteins in Streptomyces coelicolor A3(2). J Bacteriol (2007) 1.29
A master regulator sigmaB governs osmotic and oxidative response as well as differentiation via a network of sigma factors in Streptomyces coelicolor. Mol Microbiol (2005) 1.28
Protein loop modeling by using fragment assembly and analytical loop closure. Proteins (2010) 1.25
Community-wide evaluation of methods for predicting the effect of mutations on protein-protein interactions. Proteins (2013) 1.20
Dual role of OhrR as a repressor and an activator in response to organic hydroperoxides in Streptomyces coelicolor. J Bacteriol (2007) 1.17
The flexibility in the proline ring couples to the protein backbone. Protein Sci (2005) 1.12
Structural basis for the specialization of Nur, a nickel-specific Fur homolog, in metal sensing and DNA recognition. Nucleic Acids Res (2009) 1.09
GalaxyWEB server for protein structure prediction and refinement. Nucleic Acids Res (2012) 1.08
GalaxyRefine: Protein structure refinement driven by side-chain repacking. Nucleic Acids Res (2013) 1.06
Rab35 mediates transport of Cdc42 and Rac1 to the plasma membrane during phagocytosis. Mol Cell Biol (2010) 1.04
Neutrophils Promote Mycobacterial Trehalose Dimycolate-Induced Lung Inflammation via the Mincle Pathway. PLoS Pathog (2012) 1.04
Oxidant-responsive induction of the suf operon, encoding a Fe-S assembly system, through Fur and IscR in Escherichia coli. J Bacteriol (2008) 1.04
Role of OxyR as a peroxide-sensing positive regulator in Streptomyces coelicolor A3(2). J Bacteriol (2002) 1.03
Refinement of unreliable local regions in template-based protein models. Proteins (2012) 1.03
Filamentous artificial virus from a self-assembled discrete nanoribbon. Angew Chem Int Ed Engl (2008) 1.02
The pqrAB operon is responsible for paraquat resistance in Streptomyces coelicolor. J Bacteriol (2003) 1.00
Transmembrane signaling of chemotaxis receptor tar: insights from molecular dynamics simulation studies. Biophys J (2011) 1.00
Monothiol glutaredoxin Grx5 interacts with Fe-S scaffold proteins Isa1 and Isa2 and supports Fe-S assembly and DNA integrity in mitochondria of fission yeast. Biochem Biophys Res Commun (2010) 0.99
Conservation of thiol-oxidative stress responses regulated by SigR orthologues in actinomycetes. Mol Microbiol (2012) 0.98
Synthesis of gamma-glutamylcysteine as a major low-molecular-weight thiol in lactic acid bacteria Leuconostoc spp. Biochem Biophys Res Commun (2008) 0.98
The FALC-Loop web server for protein loop modeling. Nucleic Acids Res (2011) 0.97
Complete genome sequence analysis of Leuconostoc kimchii IMSNU 11154. J Bacteriol (2010) 0.97
Activation of the SoxR regulon in Streptomyces coelicolor by the extracellular form of the pigmented antibiotic actinorhodin. J Bacteriol (2010) 0.97
Regulation of sigmaB by an anti- and an anti-anti-sigma factor in Streptomyces coelicolor in response to osmotic stress. J Bacteriol (2004) 0.96
Refinement of protein termini in template-based modeling using conformational space annealing. Proteins (2011) 0.95
GalaxyDock2: protein-ligand docking using beta-complex and global optimization. J Comput Chem (2013) 0.93
GalaxyTBM: template-based modeling by building a reliable core and refining unreliable local regions. BMC Bioinformatics (2012) 0.92
SoxRS-mediated lipopolysaccharide modification enhances resistance against multiple drugs in Escherichia coli. J Bacteriol (2009) 0.91
Positive and negative feedback regulatory loops of thiol-oxidative stress response mediated by an unstable isoform of sigmaR in actinomycetes. Mol Microbiol (2009) 0.91
Multi-domain CGFS-type glutaredoxin Grx4 regulates iron homeostasis via direct interaction with a repressor Fep1 in fission yeast. Biochem Biophys Res Commun (2011) 0.91
Localization and function of three monothiol glutaredoxins in Schizosaccharomyces pombe. Biochem Biophys Res Commun (2005) 0.91
Blind prediction of interfacial water positions in CAPRI. Proteins (2013) 0.90
Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment. Proteins (2016) 0.90
Comparative study of SoxR activation by redox-active compounds. Mol Microbiol (2013) 0.89
IL-7 production in murine lymphatic endothelial cells and induction in the setting of peripheral lymphopenia. Int Immunol (2013) 0.88
Nickel-containing superoxide dismutase. Methods Enzymol (2002) 0.88
Glutathione reductase and a mitochondrial thioredoxin play overlapping roles in maintaining iron-sulfur enzymes in fission yeast. Eukaryot Cell (2006) 0.88
LigDockCSA: protein-ligand docking using conformational space annealing. J Comput Chem (2011) 0.88
De novo protein structure prediction by dynamic fragment assembly and conformational space annealing. Proteins (2011) 0.86
GalaxyDock: protein-ligand docking with flexible protein side-chains. J Chem Inf Model (2012) 0.86
Cooperativity and specificity of Cys2His2 zinc finger protein-DNA interactions: a molecular dynamics simulation study. J Phys Chem B (2010) 0.85
Isolation and characterization of Streptomyces coelicolor RNA polymerase, its sigma, and antisigma factors. Methods Enzymol (2003) 0.85
Identification of genes for mycothiol biosynthesis in Streptomyces coelicolor A3(2). J Microbiol (2006) 0.85
Capillary based patterning of cellular communities in laterally open channels. Anal Chem (2010) 0.85
GalaxyGemini: a web server for protein homo-oligomer structure prediction based on similarity. Bioinformatics (2013) 0.84
Identification of sigmaB-dependent promoters using consensus-directed search of Streptomyces coelicolor genome. J Microbiol (2004) 0.84
Transition between B-DNA and Z-DNA: free energy landscape for the B-Z junction propagation. J Phys Chem B (2010) 0.84
Determinants of redox sensitivity in RsrA, a zinc-containing anti-sigma factor for regulating thiol oxidative stress response. Nucleic Acids Res (2011) 0.84
Inactivation of homocitrate synthase causes lysine auxotrophy in copper/zinc-containing superoxide dismutase-deficient yeast Schizosaccharomyces pombe. J Biol Chem (2005) 0.83
Strength of Calpha-H...O=C hydrogen bonds in transmembrane proteins. J Phys Chem B (2007) 0.83
Regulation and the role of Cu,Zn-containing superoxide dismutase in cell cycle progression of Schizosaccharomyces pombe. Biochem Biophys Res Commun (2002) 0.82
A statistical rescoring scheme for protein-ligand docking: Consideration of entropic effect. Proteins (2008) 0.82
Rotational superposition and least squares: the SVD and quaternions approaches yield identical results. Reply to the preceding comment by G. Kneller. J Comput Chem (2005) 0.81
The role and regulation of Trxl, a cytosolic thioredoxin in Schizosaccharomyces pombe. J Microbiol (2008) 0.81
Inverse regulation of Fe- and Ni-containing SOD genes by a Fur family regulator Nur through small RNA processed from 3'UTR of the sodF mRNA. Nucleic Acids Res (2013) 0.81
Self-dissociating tubules from helical stacking of noncovalent macrocycles. Angew Chem Int Ed Engl (2010) 0.80
Gpx1 is a stationary phase-specific thioredoxin peroxidase in fission yeast. Biochem Biophys Res Commun (2007) 0.80
What stabilizes close arginine pairing in proteins? Phys Chem Chem Phys (2013) 0.80
Thiol-independent action of mitochondrial thioredoxin to support the urea cycle of arginine biosynthesis in Schizosaccharomyces pombe. Eukaryot Cell (2008) 0.79
Effective protein model structure refinement by loop modeling and overall relaxation. Proteins (2015) 0.79
Discovery, design and synthesis of Y-shaped peroxisome proliferator-activated receptor δ agonists as potent anti-obesity agents in vivo. Eur J Med Chem (2012) 0.78
Regulation of a nickel-cobalt efflux system and nickel homeostasis in a soil actinobacterium Streptomyces coelicolor. Metallomics (2015) 0.77
Differential expression and role of two dithiol glutaredoxins Grx1 and Grx2 in Schizosaccharomyces pombe. Biochem Biophys Res Commun (2004) 0.77
A homeobox protein Phx1 regulates long-term survival and meiotic sporulation in Schizosaccharomyces pombe. BMC Microbiol (2012) 0.77
Streptomyces telomeres contain a promoter. J Bacteriol (2008) 0.77
Post-translational regulation of a developmental catalase, CatB, involves a metalloprotease, SmpA and contributes to proper differentiation and osmoprotection of Streptomyces coelicolor. Res Microbiol (2012) 0.77
Glycoconjugate nanoribbons from the self-assembly of carbohydrate-peptide block molecules for controllable bacterial cell cluster formation. Biomacromolecules (2007) 0.77
Partial purification of factors for differential transcription of the rrnD promoters for ribosomal RNA synthesis in Streptomyces coelicolor. J Microbiol (2007) 0.77
Switchable nanoporous sheets by the aqueous self-assembly of aromatic macrobicycles. Angew Chem Int Ed Engl (2013) 0.77
Helix stabilized, thermostable, and protease-resistant self-assembled peptide nanostructures as potential inhibitors of protein-protein interactions. Biomacromolecules (2013) 0.76
Structure of vaccinia virus A46, an inhibitor of TLR4 signaling pathway, shows the conformation of VIPER motif. Protein Sci (2014) 0.76
How does a registry change in dynein's coiled-coil stalk drive binding of dynein to microtubules? Biochemistry (2011) 0.76
New molecular interaction of IIA(Ntr) and HPr from Burkholderia pseudomallei identified by X-ray crystallography and docking studies. Proteins (2013) 0.75