Published in Bioinformatics on March 29, 2005
Dynamic evolution of selenocysteine utilization in bacteria: a balance between selenoprotein loss and evolution of selenocysteine from redox active cysteine residues. Genome Biol (2006) 1.55
Analysis of the cDNAs of hypothetical genes on Arabidopsis chromosome 2 reveals numerous transcript variants. Plant Physiol (2005) 1.44
The microbial selenoproteome of the Sargasso Sea. Genome Biol (2005) 1.39
Biological systems discovery in silico: radical S-adenosylmethionine protein families and their target peptides for posttranslational modification. J Bacteriol (2011) 1.38
General trends in trace element utilization revealed by comparative genomic analyses of Co, Cu, Mo, Ni, and Se. J Biol Chem (2009) 1.29
Identification and characterization of a selenoprotein family containing a diselenide bond in a redox motif. Proc Natl Acad Sci U S A (2007) 1.18
Understanding the importance of selenium and selenoproteins in muscle function. Cell Mol Life Sci (2006) 1.18
Trends in selenium utilization in marine microbial world revealed through the analysis of the global ocean sampling (GOS) project. PLoS Genet (2008) 1.15
A recoding element that stimulates decoding of UGA codons by Sec tRNA[Ser]Sec. RNA (2007) 1.10
High content of proteins containing 21st and 22nd amino acids, selenocysteine and pyrrolysine, in a symbiotic deltaproteobacterium of gutless worm Olavius algarvensis. Nucleic Acids Res (2007) 1.09
SelenoDB 1.0 : a database of selenoprotein genes, proteins and SECIS elements. Nucleic Acids Res (2008) 1.00
Functional diversity of cysteine residues in proteins and unique features of catalytic redox-active cysteines in thiol oxidoreductases. Mol Cells (2008) 0.97
Clostridium difficile is an autotrophic bacterial pathogen. PLoS One (2013) 0.97
Making sense of nonsense: the evolution of selenocysteine usage in proteins. Genome Biol (2005) 0.94
Selenoprofiles: profile-based scanning of eukaryotic genome sequences for selenoprotein genes. Bioinformatics (2010) 0.89
The selenoproteome of Clostridium sp. OhILAs: characterization of anaerobic bacterial selenoprotein methionine sulfoxide reductase A. Proteins (2009) 0.89
Comparative genomics of trace element dependence in biology. J Biol Chem (2011) 0.88
Involvement of NADH:acceptor oxidoreductase and butyryl coenzyme A dehydrogenase in reversed electron transport during syntrophic butyrate oxidation by Syntrophomonas wolfei. J Bacteriol (2009) 0.87
Tandem use of selenocysteine: adaptation of a selenoprotein glutaredoxin for reduction of selenoprotein methionine sulfoxide reductase. Mol Microbiol (2011) 0.86
Mining prokaryotic genomes for unknown amino acids: a stop-codon-based approach. BMC Bioinformatics (2007) 0.85
Genome analysis of Desulfotomaculum kuznetsovii strain 17(T) reveals a physiological similarity with Pelotomaculum thermopropionicum strain SI(T). Stand Genomic Sci (2013) 0.84
A computational method to predict genetically encoded rare amino acids in proteins. Genome Biol (2005) 0.84
Factors and selenocysteine insertion sequence requirements for the synthesis of selenoproteins from a gram-positive anaerobe in Escherichia coli. Appl Environ Microbiol (2007) 0.83
Targeting selenium metabolism and selenoproteins: novel avenues for drug discovery. Metallomics (2009) 0.83
Multiple amino acid sequence alignment nitrogenase component 1: insights into phylogenetics and structure-function relationships. PLoS One (2013) 0.82
Insights into CO2 Fixation Pathway of Clostridium autoethanogenum by Targeted Mutagenesis. MBio (2016) 0.82
A method for identification of selenoprotein genes in archaeal genomes. Genomics Proteomics Bioinformatics (2009) 0.81
Evolution of the Selenoproteome in Helicobacter pylori and Epsilonproteobacteria. Genome Biol Evol (2015) 0.79
dbTEU: a protein database of trace element utilization. Bioinformatics (2010) 0.79
Lokiarchaeota Marks the Transition between the Archaeal and Eukaryotic Selenocysteine Encoding Systems. Mol Biol Evol (2016) 0.78
Selenium utilization in thioredoxin and catalytic advantage provided by selenocysteine. Biochem Biophys Res Commun (2015) 0.77
General metabolism of Laribacter hongkongensis: a genome-wide analysis. Cell Biosci (2011) 0.76
Privileged incorporation of selenium as selenocysteine in Lactobacillus reuteri proteins demonstrated by selenium-specific imaging and proteomics. Mol Cell Proteomics (2013) 0.76
Genome sequence of the organohalide-respiring Dehalogenimonas alkenigignens type strain (IP3-3(T)). Stand Genomic Sci (2016) 0.76
Comparative genomics reveals new evolutionary and ecological patterns of selenium utilization in bacteria. ISME J (2016) 0.75
Computational identification of the selenocysteine tRNA (tRNASec) in genomes. PLoS Comput Biol (2017) 0.75
Genome and catabolic subproteomes of the marine, nutritionally versatile, sulfate-reducing bacterium Desulfococcus multivorans DSM 2059. BMC Genomics (2016) 0.75
Global analysis of translation termination in E. coli. PLoS Genet (2017) 0.75
The Chlamydomonas genome reveals the evolution of key animal and plant functions. Science (2007) 11.15
Characterization of mammalian selenoproteomes. Science (2003) 9.07
How selenium has altered our understanding of the genetic code. Mol Cell Biol (2002) 4.52
Genome sequencing reveals insights into physiology and longevity of the naked mole rat. Nature (2011) 3.19
Biosynthesis of selenocysteine on its tRNA in eukaryotes. PLoS Biol (2007) 2.96
Selenoprotein R is a zinc-containing stereo-specific methionine sulfoxide reductase. Proc Natl Acad Sci U S A (2002) 2.33
Selenoproteins and selenocysteine insertion system in the model plant cell system, Chlamydomonas reinhardtii. EMBO J (2002) 2.13
Methionine sulfoxide reduction in mammals: characterization of methionine-R-sulfoxide reductases. Mol Biol Cell (2003) 2.11
Identification and characterization of phosphoseryl-tRNA[Ser]Sec kinase. Proc Natl Acad Sci U S A (2004) 1.97
High-throughput identification of catalytic redox-active cysteine residues. Science (2007) 1.92
Selenocysteine incorporation machinery and the role of selenoproteins in development and health. Prog Nucleic Acid Res Mol Biol (2006) 1.89
The prokaryotic selenoproteome. EMBO Rep (2004) 1.85
Thioredoxin reductase 1 deficiency reverses tumor phenotype and tumorigenicity of lung carcinoma cells. J Biol Chem (2006) 1.81
Genome-wide ribosome profiling reveals complex translational regulation in response to oxidative stress. Proc Natl Acad Sci U S A (2012) 1.80
Comparative genomic analyses of nickel, cobalt and vitamin B12 utilization. BMC Genomics (2009) 1.80
Novel metabolism in Chlamydomonas through the lens of genomics. Curr Opin Plant Biol (2007) 1.77
MsrB1 and MICALs regulate actin assembly and macrophage function via reversible stereoselective methionine oxidation. Mol Cell (2013) 1.77
Methionine sulfoxide reductases: selenoprotein forms and roles in antioxidant protein repair in mammals. Biochem J (2007) 1.76
Niche of harmful alga Aureococcus anophagefferens revealed through ecogenomics. Proc Natl Acad Sci U S A (2011) 1.76
Different catalytic mechanisms in mammalian selenocysteine- and cysteine-containing methionine-R-sulfoxide reductases. PLoS Biol (2005) 1.72
Methionine sulfoxide reductase regulation of yeast lifespan reveals reactive oxygen species-dependent and -independent components of aging. Proc Natl Acad Sci U S A (2004) 1.72
Reaction mechanism, evolutionary analysis, and role of zinc in Drosophila methionine-R-sulfoxide reductase. J Biol Chem (2002) 1.68
Specific excision of the selenocysteine tRNA[Ser]Sec (Trsp) gene in mouse liver demonstrates an essential role of selenoproteins in liver function. J Biol Chem (2003) 1.66
Structural analysis of cysteine S-nitrosylation: a modified acid-based motif and the emerging role of trans-nitrosylation. J Mol Biol (2009) 1.62
Eukaryotic selenoproteins and selenoproteomes. Biochim Biophys Acta (2009) 1.59
Mammalian selenoprotein in which selenocysteine (Sec) incorporation is supported by a new form of Sec insertion sequence element. Mol Cell Biol (2002) 1.58
Reconsidering the evolution of eukaryotic selenoproteins: a novel nonmammalian family with scattered phylogenetic distribution. EMBO Rep (2004) 1.58
Dynamic evolution of selenocysteine utilization in bacteria: a balance between selenoprotein loss and evolution of selenocysteine from redox active cysteine residues. Genome Biol (2006) 1.55
Selective rescue of selenoprotein expression in mice lacking a highly specialized methyl group in selenocysteine tRNA. J Biol Chem (2004) 1.49
Pyrrolysine and selenocysteine use dissimilar decoding strategies. J Biol Chem (2005) 1.43
Evolutionary dynamics of eukaryotic selenoproteomes: large selenoproteomes may associate with aquatic life and small with terrestrial life. Genome Biol (2007) 1.41
Selective removal of the selenocysteine tRNA [Ser]Sec gene (Trsp) in mouse mammary epithelium. Mol Cell Biol (2003) 1.41
Targeting thioredoxin reductase 1 reduction in cancer cells inhibits self-sufficient growth and DNA replication. PLoS One (2007) 1.40
Selenoprotein deficiency and high levels of selenium compounds can effectively inhibit hepatocarcinogenesis in transgenic mice. Oncogene (2005) 1.39
The microbial selenoproteome of the Sargasso Sea. Genome Biol (2005) 1.39
A highly efficient form of the selenocysteine insertion sequence element in protozoan parasites and its use in mammalian cells. Proc Natl Acad Sci U S A (2007) 1.38
Identity and functions of CxxC-derived motifs. Biochemistry (2003) 1.37
Comparative genomic analyses of copper transporters and cuproproteomes reveal evolutionary dynamics of copper utilization and its link to oxygen. PLoS One (2008) 1.36
Hydrogen peroxide probes directed to different cellular compartments. PLoS One (2011) 1.34
Selenophosphate synthetase 2 is essential for selenoprotein biosynthesis. Biochem J (2007) 1.34
Catalytic advantages provided by selenocysteine in methionine-S-sulfoxide reductases. Biochemistry (2006) 1.32
Comparative analysis of selenocysteine machinery and selenoproteome gene expression in mouse brain identifies neurons as key functional sites of selenium in mammals. J Biol Chem (2007) 1.32
Selenium metabolism in Trypanosoma: characterization of selenoproteomes and identification of a Kinetoplastida-specific selenoprotein. Nucleic Acids Res (2006) 1.32
Role of structural and functional elements of mouse methionine-S-sulfoxide reductase in its subcellular distribution. Biochemistry (2005) 1.32
Genome analysis reveals insights into physiology and longevity of the Brandt's bat Myotis brandtii. Nat Commun (2013) 1.31
Evidence for direct roles of two additional factors, SECp43 and soluble liver antigen, in the selenoprotein synthesis machinery. J Biol Chem (2005) 1.31
SelT, SelW, SelH, and Rdx12: genomics and molecular insights into the functions of selenoproteins of a novel thioredoxin-like family. Biochemistry (2007) 1.31
Characterization of alternative cytosolic forms and cellular targets of mouse mitochondrial thioredoxin reductase. J Biol Chem (2006) 1.30
The Sep15 protein family: roles in disulfide bond formation and quality control in the endoplasmic reticulum. IUBMB Life (2007) 1.30
General trends in trace element utilization revealed by comparative genomic analyses of Co, Cu, Mo, Ni, and Se. J Biol Chem (2009) 1.29
Crystal structures of oxidized and reduced mitochondrial thioredoxin reductase provide molecular details of the reaction mechanism. Proc Natl Acad Sci U S A (2005) 1.29
NMR structures of the selenoproteins Sep15 and SelM reveal redox activity of a new thioredoxin-like family. J Biol Chem (2005) 1.29
Analysis and functional prediction of reactive cysteine residues. J Biol Chem (2011) 1.29
Semisynthesis and characterization of mammalian thioredoxin reductase. Biochemistry (2006) 1.28
Molybdoproteomes and evolution of molybdenum utilization. J Mol Biol (2008) 1.27
Thiol peroxidases mediate specific genome-wide regulation of gene expression in response to hydrogen peroxide. Proc Natl Acad Sci U S A (2011) 1.26
Structure and catalytic mechanism of eukaryotic selenocysteine synthase. J Biol Chem (2007) 1.26
Functions and evolution of selenoprotein methionine sulfoxide reductases. Biochim Biophys Acta (2009) 1.25
MsrB1 (methionine-R-sulfoxide reductase 1) knock-out mice: roles of MsrB1 in redox regulation and identification of a novel selenoprotein form. J Biol Chem (2008) 1.24
Nematode selenoproteome: the use of the selenocysteine insertion system to decode one codon in an animal genome? Nucleic Acids Res (2005) 1.24
Mammalian selenoprotein thioredoxin-glutathione reductase. Roles in disulfide bond formation and sperm maturation. J Biol Chem (2005) 1.24
Cysteine function governs its conservation and degeneration and restricts its utilization on protein surfaces. J Mol Biol (2010) 1.24
Diversity and functional plasticity of eukaryotic selenoproteins: identification and characterization of the SelJ family. Proc Natl Acad Sci U S A (2005) 1.23
Evolution of selenium utilization traits. Genome Biol (2005) 1.22
Reduced reliance on the trace element selenium during evolution of mammals. Genome Biol (2008) 1.22
Platyhelminth mitochondrial and cytosolic redox homeostasis is controlled by a single thioredoxin glutathione reductase and dependent on selenium and glutathione. J Biol Chem (2008) 1.22
The Plasmodium selenoproteome. Nucleic Acids Res (2006) 1.21
Functional analysis of free methionine-R-sulfoxide reductase from Saccharomyces cerevisiae. J Biol Chem (2008) 1.19
Genetic code supports targeted insertion of two amino acids by one codon. Science (2009) 1.19
Identification and characterization of a selenoprotein family containing a diselenide bond in a redox motif. Proc Natl Acad Sci U S A (2007) 1.18
Functional null mutations of MSRB3 encoding methionine sulfoxide reductase are associated with human deafness DFNB74. Am J Hum Genet (2010) 1.18
Selenoproteins that function in cancer prevention and promotion. Biochim Biophys Acta (2009) 1.16
The Outcome of Selenium and Vitamin E Cancer Prevention Trial (SELECT) reveals the need for better understanding of selenium biology. Mol Interv (2009) 1.16
Recode-2: new design, new search tools, and many more genes. Nucleic Acids Res (2009) 1.15
Trends in selenium utilization in marine microbial world revealed through the analysis of the global ocean sampling (GOS) project. PLoS Genet (2008) 1.15
Selenocysteine in thiol/disulfide-like exchange reactions. Antioxid Redox Signal (2012) 1.13
Reaction mechanism and regulation of mammalian thioredoxin/glutathione reductase. Biochemistry (2005) 1.13
Sep15, a thioredoxin-like selenoprotein, is involved in the unfolded protein response and differentially regulated by adaptive and acute ER stresses. Biochemistry (2009) 1.12
Selenoprotein H is a nucleolar thioredoxin-like protein with a unique expression pattern. J Biol Chem (2007) 1.12
Selective restoration of the selenoprotein population in a mouse hepatocyte selenoproteinless background with different mutant selenocysteine tRNAs lacking Um34. J Biol Chem (2007) 1.11
Composition and evolution of the vertebrate and mammalian selenoproteomes. PLoS One (2012) 1.11
Role of reactive oxygen species-mediated signaling in aging. Antioxid Redox Signal (2012) 1.11
Selenoproteinless animals: selenophosphate synthetase SPS1 functions in a pathway unrelated to selenocysteine biosynthesis. Protein Sci (2008) 1.11
Deficiency in the 15-kDa selenoprotein inhibits tumorigenicity and metastasis of colon cancer cells. Cancer Prev Res (Phila) (2010) 1.10
Structure-function relations, physiological roles, and evolution of mammalian ER-resident selenoproteins. Antioxid Redox Signal (2010) 1.09
High content of proteins containing 21st and 22nd amino acids, selenocysteine and pyrrolysine, in a symbiotic deltaproteobacterium of gutless worm Olavius algarvensis. Nucleic Acids Res (2007) 1.09
Knocking out multigene redundancies via cycles of sexual assortment and fluorescence selection. Nat Methods (2011) 1.08
Spatial and temporal expression patterns of selenoprotein genes during embryogenesis in zebrafish. Gene Expr Patterns (2003) 1.08
Selenoproteins mediate T cell immunity through an antioxidant mechanism. J Biol Chem (2008) 1.07
CUG start codon generates thioredoxin/glutathione reductase isoforms in mouse testes. J Biol Chem (2009) 1.05
Mammals reduce methionine-S-sulfoxide with MsrA and are unable to reduce methionine-R-sulfoxide, and this function can be restored with a yeast reductase. J Biol Chem (2008) 1.04
Both maximal expression of selenoproteins and selenoprotein deficiency can promote development of type 2 diabetes-like phenotype in mice. Antioxid Redox Signal (2011) 1.04
Endothelial nitric oxide synthase negatively regulates hydrogen peroxide-stimulated AMP-activated protein kinase in endothelial cells. Proc Natl Acad Sci U S A (2009) 1.04
Mammalian thioredoxin reductase 1: roles in redox homoeostasis and characterization of cellular targets. Biochem J (2010) 1.03
Targeted insertion of cysteine by decoding UGA codons with mammalian selenocysteine machinery. Proc Natl Acad Sci U S A (2010) 1.03
Selenoproteins regulate macrophage invasiveness and extracellular matrix-related gene expression. BMC Immunol (2009) 1.03
Characterization of mouse endoplasmic reticulum methionine-R-sulfoxide reductase. Biochem Biophys Res Commun (2004) 1.03
Alternative first exon splicing regulates subcellular distribution of methionine sulfoxide reductases. BMC Mol Biol (2006) 1.02