Functional genomics and enzyme evolution

[1]  Amos Bairoch,et al.  The PROSITE database, its status in 1999 , 1999, Nucleic Acids Res..

[2]  V. K. Eugene.  Beyond the complete genomes : from sequences to structure and function , 1998 .

[3]  Michael Y. Galperin,et al.  Using metabolic pathway databases for functional annotation. , 1998, Trends in genetics : TIG.

[4]  Michael Y. Galperin,et al.  Analogous enzymes: independent inventions in enzyme evolution. , 1998, Genome research.

[5]  Michael Y. Galperin,et al.  A superfamily of metalloenzymes unifies phosphopentomutase and cofactor‐independent phosphoglycerate mutase with alkaline phosphatases and sulfatases , 1998, Protein science : a publication of the Protein Society.

[6]  Michael Y. Galperin,et al.  Beyond complete genomes: from sequence to structure and function. , 1998, Current opinion in structural biology.

[7]  C. Clayton,et al.  Helicobacter pylori porCDAB and oorDABCGenes Encode Distinct Pyruvate:Flavodoxin and 2-Oxoglutarate:Acceptor Oxidoreductases Which Mediate Electron Transport to NADP , 1998, Journal of bacteriology.

[8]  Michael Y. Galperin,et al.  Sources of systematic error in functional annotation of genomes: domain rearrangement, non-orthologous gene displacement, and operon disruption , 1998, Silico Biol..

[9]  Sean R. Eddy,et al.  Pfam: multiple sequence alignments and HMM-profiles of protein domains , 1998, Nucleic Acids Res..

[10]  Terri K. Attwood,et al.  The PRINTS protein fingerprint database in its fifth year , 1998, Nucleic Acids Res..

[11]  Shmuel Pietrokovski,et al.  Superior performance in protein homology detection with the Blocks Database servers , 1998, Nucleic Acids Res..

[12]  Jérôme Gouzy,et al.  The ProDom database of protein domain families , 1998, Nucleic Acids Res..

[13]  D. Lipman,et al.  A genomic perspective on protein families. , 1997, Science.

[14]  N. W. Davis,et al.  The complete genome sequence of Escherichia coli K-12. , 1997, Science.

[15]  Thomas L. Madden,et al.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. , 1997, Nucleic acids research.

[16]  Mark Borodovsky,et al.  The complete genome sequence of the gastric pathogen Helicobacter pylori , 1997, Nature.

[17]  Michael Y. Galperin,et al.  Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea , 1997, Molecular microbiology.

[18]  R. Overbeek,et al.  Representation of function: the next step. , 1997, Gene.

[19]  Hara,et al.  Studies on the biosynthesis of bialaphos. Biochemical mechanism of C-P bond formation: discovery of phosphonopyruvate decarboxylase which catalyzes the formation of phosphonoacetaldehyde from phosphonopyruvate , 1997, The Journal of antibiotics.

[20]  O. White,et al.  Erratum: The complete genome sequence of the gastric pathogen Helicobacter pylori (Nature (1997) 388 (539-547)) , 1997 .

[21]  Christopher J. Rawlings,et al.  DNA and protein sequence analysis : a practical approach , 1997 .

[22]  A. Bairoch,et al.  The PROSITE database, its status in 1997 , 1997, Nucleic Acids Res..

[23]  W. Hunter,et al.  The crystal structure of a class II fructose-1,6-bisphosphate aldolase shows a novel binuclear metal-binding active site embedded in a familiar fold. , 1996, Structure.

[24]  E. Koonin,et al.  A minimal gene set for cellular life derived by comparison of complete bacterial genomes. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[25]  P. Bork,et al.  Non-orthologous gene displacement. , 1996, Trends in genetics : TIG.

[26]  J W Fickett,et al.  Finding genes by computer: the state of the art. , 1996, Trends in genetics : TIG.

[27]  T. Conway,et al.  Evolution of carbohydrate metabolic pathways. , 1996, Research in microbiology.

[28]  C Ouzounis,et al.  Novelties from the complete genome of Mycoplasma genitalium , 1996, Molecular microbiology.

[29]  P. Labbé,et al.  Cloning and Characterization of the Yeast HEM14 Gene Coding for Protoporphyrinogen Oxidase, the Molecular Target of Diphenyl Ether-type Herbicides (*) , 1996, The Journal of Biological Chemistry.

[30]  P. Bork,et al.  Metabolism and evolution of Haemophilus influenzae deduced from a whole-genome comparison with Escherichia coli , 1996, Current Biology.

[31]  W. Pearson.  Effective protein sequence comparison. , 1996, Methods in enzymology.

[32]  C R Woese,et al.  Methanococcus jannaschii genome: revisited. , 1996, Microbial & comparative genomics.

[33]  W. D. de Vos,et al.  Purification and Characterization of a Novel ADP-dependent Glucokinase from the Hyperthermophilic Archaeon Pyrococcus furiosus(*) , 1995, The Journal of Biological Chemistry.

[34]  P. L. Manachini,et al.  Cloning, sequencing and expression of the ilvBNC gene cluster from Streptomyces avermitilis. , 1995, Gene.

[35]  G. Weinstock,et al.  Generation of auxotrophic mutants of Enterococcus faecalis , 1995, Journal of bacteriology.

[36]  R. Fleischmann,et al.  The Minimal Gene Complement of Mycoplasma genitalium , 1995, Science.

[37]  R. Fleischmann,et al.  Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. , 1995, Science.

[38]  Y. Takada,et al.  Differential expression in Escherichia coli of the Vibrio sp. strain ABE-1 icdI and icdII genes encoding structurally different isocitrate dehydrogenase isozymes , 1995, Journal of bacteriology.

[39]  H. Nakashita,et al.  The carboxyphosphonoenolpyruvate synthase-encoding gene from the bialaphos-producing organism Streptomyces hygroscopicus. , 1995, Gene.

[40]  M. Brendel,et al.  Cloning, sequencing, and characterizing the Lactobacillus leichmannii pyrC gene encoding dihydroorotase. , 1995, Biochimie.

[41]  John C. Wootton,et al.  Non-globular Domains in Protein Sequences: Automated Segmentation Using Complexity Measures , 1994, Comput. Chem..

[42]  M. Adams,et al.  Pyruvate ferredoxin oxidoreductases of the hyperthermophilic archaeon, Pyrococcus furiosus, and the hyperthermophilic bacterium, Thermotoga maritima, have different catalytic mechanisms. , 1994, Biochemistry.

[43]  C. Sander,et al.  Convergent evolution of similar enzymatic function on different protein folds: The hexokinase, ribokinase, and galactokinase families of sugar kinases , 1993, Protein science : a publication of the Protein Society.

[44]  P. Michels,et al.  Evolution of glycolysis. , 1993, Progress in biophysics and molecular biology.

[45]  S. Ehrlich,et al.  Branched-chain amino acid biosynthesis genes in Lactococcus lactis subsp. lactis , 1992, Journal of bacteriology.

[46]  J. Marsh,et al.  Fructose-bisphosphate aldolases: an evolutionary history. , 1992, Trends in biochemical sciences.

[47]  R. Switzer,et al.  Functional organization and nucleotide sequence of the Bacillus subtilis pyrimidine biosynthetic operon. , 1991, The Journal of biological chemistry.

[48]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[49]  D. Lipman,et al.  Improved tools for biological sequence comparison. , 1988, Proceedings of the National Academy of Sciences of the United States of America.

[50]  H. Gest.  Evolutionary roots of the citric acid cycle in prokaryotes. , 1987, Biochemical Society symposium.

[51]  T. B. Powers,et al.  Iron superoxide dismutase from Escherichia coli at 3.1-A resolution: a structure unlike that of copper/zinc protein at both monomer and dimer levels. , 1983, Proceedings of the National Academy of Sciences of the United States of America.

[52]  G. Pons,et al.  Phylogeny and ontogeny of the phosphoglycerate mutases--IV. Distribution of glycerate-2,3-P2 dependent and independent phosphoglycerate mutases in algae, fungi, plants and animals. , 1982, Comparative biochemistry and physiology. B, Comparative biochemistry.

[53]  F. Daldal,et al.  Tn10 insertions in the pfkB region of Escherichia coli , 1981, Journal of bacteriology.

[54]  M S Waterman,et al.  Identification of common molecular subsequences. , 1981, Journal of molecular biology.

[55]  P. Weitzman.  Unity and diversity in some bacterial citric acid-cycle enzymes. , 1981, Advances in microbial physiology.

[56]  W. Rutter,et al.  EVOLUTION OF ALDOLASE. , 1964, Federation proceedings.