A roadmap for the functional annotation of protein families: a community perspective.

Autor: de Crécy-Lagard V; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Amorin de Hegedus R; Genetics Institute, University of Florida, Gainesville, FL 32611, USA., Arighi C; Department of Computer and Information Sciences, University of Delaware, Newark, DE 19713, USA., Babor J; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Bateman A; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton CB10 1SD, UK., Blaby I; US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA., Blaby-Haas C; Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA., Bridge AJ; Swiss-Prot group, SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire, Geneva 4 CH-1211, Switzerland., Burley SK; RCSB Protein Data Bank, Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA., Cleveland S; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Colwell LJ; Departmenf of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, UK., Conesa A; Spanish National Research Council, Institute for Integrative Systems Biology, Paterna, Valencia 46980, Spain., Dallago C; TUM (Technical University of Munich) Department of Informatics, Bioinformatics & Computational Biology, i12, Boltzmannstr. 3, Garching/Munich 85748, Germany., Danchin A; School of Biomedical Sciences, Li KaShing Faculty of Medicine, The University of Hong Kong, 21 Sassoon Road, Pokfulam, SAR Hong Kong 999077, China., de Waard A; Research Collaboration Unit, Elsevier, Jericho, VT 05465, USA., Deutschbauer A; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA., Dias R; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Ding Y; Department of Medicinal Chemistry, Center for Natural Products, Drug Discovery and Development, University of Florida, Gainesville, FL 32610, USA., Fang G; NYU-Shanghai, Shanghai 200120, China., Friedberg I; Department of Veterinary Microbiology and Preventive Medicine, Iowa State University, Ames, IA 50011, USA., Gerlt J; Institute for Genomic Biology and Departments of Biochemistry and Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA., Goldford J; Physics of Living Systems, Massachusetts Institute of Technology, Cambridge, MA 02139, USA., Gorelik M; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Gyori BM; Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA 02115, USA., Henry C; Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, USA., Hutinet G; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Jaroch M; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Karp PD; Bioinformatics Research Group, SRI International, Menlo Park, CA 94025, USA., Kondratova L; Genetics Institute, University of Florida, Gainesville, FL 32611, USA., Lu Z; National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), 8600 Rockville Pike, Bethesda, MD 20817, USA., Marchler-Bauer A; National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), 8600 Rockville Pike, Bethesda, MD 20817, USA., Martin MJ; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton CB10 1SD, UK., McWhite C; Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08540, USA., Moghe GD; Plant Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY 14853, USA., Monaghan P; Department of Agricultural Education and Communication, University of Florida, Gainesville, FL 32611, USA., Morgat A; Swiss-Prot group, SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire, Geneva 4 CH-1211, Switzerland., Mungall CJ; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA., Natale DA; Georgetown University Medical Center, Washington, DC 20007, USA., Nelson WC; Biological Sciences Division, Pacific Northwest National Laboratories, Richland, WA 99354, USA., O'Donoghue S; School of Biotechnology and Biomolecular Sciences, University of NSW, Sydney, NSW 2052, Australia., Orengo C; Department of Structural and Molecular Biology, University College London, London WC1E 6BT, UK., O'Toole KH; New England Biolabs, Ipswich, MA 01938, USA., Radivojac P; Khoury College of Computer Sciences, Northeastern University, Boston, MA 02115, USA., Reed C; Department of Microbiology and Cell Sciences, University of Florida, Gainesville, FL 32611, USA., Roberts RJ; New England Biolabs, Ipswich, MA 01938, USA., Rodionov D; Sanford Burnham Prebys Medical Discovery Institute, La Jolla, CA 92037, USA., Rodionova IA; Department of Bioengineering, Division of Engineering, University of California at San Diego, La Jolla, CA 92093-0412, USA., Rudolf JD; Department of Chemistry, University of Florida, Gainesville, FL 32611, USA., Saleh L; New England Biolabs, Ipswich, MA 01938, USA., Sheynkman G; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA, USA., Thibaud-Nissen F; National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), 8600 Rockville Pike, Bethesda, MD 20817, USA., Thomas PD; Department of Population and Public Health Sciences, University of Southern California, Los Angeles, CA 90033, USA., Uetz P; Center for Biological Data Science, Virginia Commonwealth University, Richmond, VA 23284, USA., Vallenet D; LABGeM, Génomique Métabolique, CEA, Genoscope, Institut François Jacob, Université d'Évry, Université Paris-Saclay, CNRS, Evry 91057, France., Carter EW; Department of Plant Pathology, University of Florida Citrus Research and Education Center, 700 Experiment Station Rd., Lake Alfred, FL 33850, USA., Weigele PR; New England Biolabs, Ipswich, MA 01938, USA., Wood V; Department of Biochemistry, University of Cambridge, Cambridge CB2 1GA, UK., Wood-Charlson EM; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA., Xu J; Department of Plant Pathology, University of Florida Citrus Research and Education Center, 700 Experiment Station Rd., Lake Alfred, FL 33850, USA.

Publikováno v: Database : the journal of biological databases and curation [Database (Oxford)] 2022 Aug 12; Vol. 2022.

Phage-encoded ten-eleven translocation dioxygenase (TET) is active in C5-cytosine hypermodification in DNA.

Autor: Burke EJ; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Rodda SS; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Lund SR; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Sun Z; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Zeroka MR; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., O'Toole KH; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Parker MJ; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Doshi DS; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Guan C; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Lee YJ; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Dai N; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Hough DM; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Shnider DA; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Corrêa IR Jr; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938., Weigele PR; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938 weigele@neb.com saleh@neb.com., Saleh L; Research Department, Molecular Enzymology Division, New England Biolabs, Ipswich, MA 01938 weigele@neb.com saleh@neb.com.

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America [Proc Natl Acad Sci U S A] 2021 Jun 29; Vol. 118 (26).

Structural Analysis of Binding Determinants of Salmonella typhimurium Trehalose-6-phosphate Phosphatase Using Ground-State Complexes.

Autor: Harvey CM; Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States., O'Toole KH; Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States., Liu C; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States., Mariano P; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States., Dunaway-Mariano D; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States., Allen KN; Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States.

Publikováno v: Biochemistry [Biochemistry] 2020 Sep 08; Vol. 59 (35), pp. 3247-3257. Date of Electronic Publication: 2020 Aug 17.

X-ray Fluorescence Nanotomography of Single Bacteria with a Sub-15 nm Beam.

Autor: Victor TW; Department of Chemistry, Stony Brook University, Stony Brook, NY, 11794, USA.; National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, 11973, USA., Easthon LM; Department of Chemistry, Boston University, Boston, MA, 02215, USA., Ge M; National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, 11973, USA., O'Toole KH; Department of Chemistry, Boston University, Boston, MA, 02215, USA., Smith RJ; National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, 11973, USA., Huang X; National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, 11973, USA., Yan H; National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, 11973, USA., Allen KN; Department of Chemistry, Boston University, Boston, MA, 02215, USA., Chu YS; National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, 11973, USA., Miller LM; Department of Chemistry, Stony Brook University, Stony Brook, NY, 11794, USA. lmiller@bnl.gov.; National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, NY, 11973, USA. lmiller@bnl.gov.

Publikováno v: Scientific reports [Sci Rep] 2018 Sep 07; Vol. 8 (1), pp. 13415. Date of Electronic Publication: 2018 Sep 07.