D G Naumoff

Summary

Publications

  1. doi Lateral gene transfer between the Bacteroidetes and Acidobacteria: the case of α-L-rhamnosidases
    Daniil G Naumoff
    Winogradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, Russia
    FEBS Lett 586:3843-51. 2012
  2. ncbi beta-fructosidase superfamily: homology with some alpha-L-arabinases and beta-D-xylosidases
    D G Naumoff
    State Institute for Genetics and Selection of Industrial Microorganisms, Moscow, Russia
    Proteins 42:66-76. 2001
  3. doi Hierarchical classification of glycoside hydrolases
    D G Naumoff
    S N Winogradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, 117312, Russia
    Biochemistry (Mosc) 76:622-35. 2011
  4. ncbi GH101 family of glycoside hydrolases: subfamily structure and evolutionary connections with other families
    Daniil G Naumoff
    Laboratory of Bioinformatics, State Institute for Genetics and Selection of Industrial Microorganisms, I Dorozhny Proezd 1, Moscow 117545, Russia
    J Bioinform Comput Biol 8:437-51. 2010
  5. pmc Retrieving sequences of enzymes experimentally characterized but erroneously annotated : the case of the putrescine carbamoyltransferase
    Daniil G Naumoff
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 409, 91405 Orsay Cedex, France
    BMC Genomics 5:52. 2004
  6. pmc GH97 is a new family of glycoside hydrolases, which is related to the alpha-galactosidase superfamily
    Daniil G Naumoff
    State Institute for Genetics and Selection of Industrial Microorganisms, I Dorozhny proezd, 1, Moscow 117545, Russia
    BMC Genomics 6:112. 2005
  7. ncbi Conserved sequence motifs in levansucrases and bifunctional beta-xylosidases and alpha-L-arabinases
    D G Naumoff
    State Institute for Genetics and Selection of Industrial Microorganisms, Moscow, Russia
    FEBS Lett 448:177-9. 1999
  8. ncbi Using quaternary structures to assess the evolutionary history of proteins: the case of the aspartate carbamoyltransferase
    Bernard Labedan
    Institut de Genetique et Microbiologie, Universite Paris Sud, Orsay, France
    Mol Biol Evol 21:364-73. 2004
  9. ncbi The difficulty of annotating genes: the case of putrescine carbamoyltransferase
    Daniil G Naumoff
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 409, 91405 Orsay Cedex, France
    Microbiology 150:3908-11. 2004
  10. ncbi Three acidic residues are at the active site of a beta-propeller architecture in glycoside hydrolase families 32, 43, 62, and 68
    Tirso Pons
    Centro de Ingenieria Genetica y Biotecnologia, Habana, Cuba
    Proteins 54:424-32. 2004

Detail Information

Publications10

  1. doi Lateral gene transfer between the Bacteroidetes and Acidobacteria: the case of α-L-rhamnosidases
    Daniil G Naumoff
    Winogradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, Russia
    FEBS Lett 586:3843-51. 2012
    ..Several proposed lateral gene transfers between the Acidobacteria and Bacteroidetes occurred presumably during specialization of these bacteria for their environments...
  2. ncbi beta-fructosidase superfamily: homology with some alpha-L-arabinases and beta-D-xylosidases
    D G Naumoff
    State Institute for Genetics and Selection of Industrial Microorganisms, Moscow, Russia
    Proteins 42:66-76. 2001
    ..It is shown for the first time that a glycosyl hydrolase superfamily can include enzymes with both inversion and retention mechanism of action. Composition of the active center for enzymes of the superfamily is discussed...
  3. doi Hierarchical classification of glycoside hydrolases
    D G Naumoff
    S N Winogradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, 117312, Russia
    Biochemistry (Mosc) 76:622-35. 2011
    ..It is shown that almost the whole variety of the enzyme catalytic domains can be brought into six main folds, large groups of proteins having the same three-dimensional structure and the supposed common evolutionary origin...
  4. ncbi GH101 family of glycoside hydrolases: subfamily structure and evolutionary connections with other families
    Daniil G Naumoff
    Laboratory of Bioinformatics, State Institute for Genetics and Selection of Industrial Microorganisms, I Dorozhny Proezd 1, Moscow 117545, Russia
    J Bioinform Comput Biol 8:437-51. 2010
    ..Among other homologous proteins we have found representatives of COG1649, as well as members of four new families of predicted glycoside hydrolases (GHL1-GHL4)...
  5. pmc Retrieving sequences of enzymes experimentally characterized but erroneously annotated : the case of the putrescine carbamoyltransferase
    Daniil G Naumoff
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 409, 91405 Orsay Cedex, France
    BMC Genomics 5:52. 2004
    ..Mistakes or gaps in such a complex process may occur when relevant knowledge is ignored, whether lost, forgotten or overlooked. This paper exemplifies an approach which could help to resuscitate such meaningful data...
  6. pmc GH97 is a new family of glycoside hydrolases, which is related to the alpha-galactosidase superfamily
    Daniil G Naumoff
    State Institute for Genetics and Selection of Industrial Microorganisms, I Dorozhny proezd, 1, Moscow 117545, Russia
    BMC Genomics 6:112. 2005
    ..However, the evolutionary relationship of the genes encoding proteins of this family remains unclear, as well as their distribution among main groups of the living organisms...
  7. ncbi Conserved sequence motifs in levansucrases and bifunctional beta-xylosidases and alpha-L-arabinases
    D G Naumoff
    State Institute for Genetics and Selection of Industrial Microorganisms, Moscow, Russia
    FEBS Lett 448:177-9. 1999
    ..It is shown for the first time that glycosyl hydrolases recognizing different glycofuranoside residues can have a common sequence motif...
  8. ncbi Using quaternary structures to assess the evolutionary history of proteins: the case of the aspartate carbamoyltransferase
    Bernard Labedan
    Institut de Genetique et Microbiologie, Universite Paris Sud, Orsay, France
    Mol Biol Evol 21:364-73. 2004
    ..Our approach integrating data obtained from the separate fields of structural biology and molecular evolution could be useful in other cases where pure statistical data need to receive independent confirmation...
  9. ncbi The difficulty of annotating genes: the case of putrescine carbamoyltransferase
    Daniil G Naumoff
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 409, 91405 Orsay Cedex, France
    Microbiology 150:3908-11. 2004
  10. ncbi Three acidic residues are at the active site of a beta-propeller architecture in glycoside hydrolase families 32, 43, 62, and 68
    Tirso Pons
    Centro de Ingenieria Genetica y Biotecnologia, Habana, Cuba
    Proteins 54:424-32. 2004
    ..Also, we propose that the beta-propeller architecture accommodates distinct binding sites for the acceptor saccharide in glycosyl transfer reaction...