Zobrazeno 1 - 10
of 38
pro vyhledávání: '"Shoshana D. Brown"'
Autor:
Yan Jessie Zhang, Patricia C. Babbitt, Swanand Rakhade, Emily B. Lancaster, Christian P. Whitman, Shoshana D. Brown, Brenda P. Medellin
Publikováno v:
Biochemistry
Tautomerase superfamily (TSF) members are constructed from a single β−α−β unit or two consecutively joined β−α−β units. This pattern prevails throughout the superfamily consisting of more than 11,000 members where homo- or heterohexamer
Autor:
Patricia C. Babbitt, Gemma L. Holliday, Shoshana D. Brown, David Mischel, Benjamin J. Polacco
Publikováno v:
Database: The Journal of Biological Databases and Curation
Determining the molecular function of enzymes discovered by genome sequencing represents a primary foundation for understanding many aspects of biology. Historically, classification of enzyme reactions has used the enzyme nomenclature system develope
Publikováno v:
PLoS Computational Biology, Vol 5, Iss 12, p e1000605 (2009)
Due to the rapid release of new data from genome sequencing projects, the majority of protein sequences in public databases have not been experimentally characterized; rather, sequences are annotated using computational analysis. The level of misanno
Externí odkaz:
https://doaj.org/article/d399fec6c83b4f6a983821429be3ec92
Autor:
Patricia C. Babbitt, Brian M. Westwood, Jacquelyn S. Fetrow, Julia D. Hayden, Thomas E. Ferrin, Kiran Kumar, Don Nguyendac, Shoshana D. Brown, Janelle B. Leuthaeuser, Brandon E. Turner, Stacy T. Knutson, John H. Morris, Gabrielle Shea, Angela F. Harper
Publikováno v:
Protein Science. 26:677-699
Protein function identification remains a significant problem. Solving this problem at the molecular functional level would allow mechanistic determinant identification-amino acids that distinguish details between functional families within a superfa
Autor:
Yan Jessie Zhang, Brenda P. Medellin, Patricia C. Babbitt, Marieke de Ruijter, Christian P. Whitman, Bert-Jan Baas, Jake LeVieux, Eyal Akiva, Shoshana D. Brown
Publikováno v:
Biochemistry. 58(22)
A 4-oxalocrotonate tautomerase (4-OT) trimer has been isolated from Burkholderia lata, and a kinetic, mechanistic, and structural analysis has been performed. The enzyme is the third described oligomer state for 4-OT along with a homo- and heterohexa
Autor:
Ian Sillitoe, Rodrigo Lopez, Arun Prasad Pandurangan, Christian J. A. Sigrist, Lorna Richardson, Sara El-Gebali, Matloob Qureshi, Hsin-Yu Chang, Nicole Redaschi, Narmada Thanki, Robert D. Finn, Typhaine Paysan-Lafosse, Darren A. Natale, Silvio C. E. Tosatto, Simon C. Potter, Gift Nuka, Huaiyu Mi, Gustavo A. Salazar, Julian Gough, Paul Thomas, David R. Haft, Matthew Fraser, Christine A. Orengo, Alex L. Mitchell, Fábio Madeira, Sebastien Pesseat, Amaia Sangrador-Vegas, Siew-Yit Yong, Catherine Rivoire, Shoshana D. Brown, Aurelien Luciani, Alan Bridge, Peer Bork, Aron Marchler-Bauer, Patricia C. Babbitt, Hongzhan Huang, Matthias Blum, Neil D. Rawlings, Teresa K. Attwood, Ivica Letunic, Granger G. Sutton, Marco Necci
Publikováno v:
Nucleic Acids Research
The InterPro database (http://www.ebi.ac.uk/interpro/) classifies protein sequences into families and predicts the presence of functionally important domains and sites. Here, we report recent developments with InterPro (version 70.0) and its associat
Atlas of the Radical SAM Superfamily: Divergent Evolution of Function Using a 'Plug and Play' Domain
Autor:
Gemma L. Holliday, Elaine C. Meng, Patricia C. Babbitt, Shoshana D. Brown, Ursula Pieper, Sara Calhoun, Eyal Akiva, Andrej Sali, Squire J. Booker
Publikováno v:
Methods in enzymology. 606
The radical SAM superfamily contains over 100,000 homologous enzymes that catalyze a remarkably broad range of reactions required for life, including metabolism, nucleic acid modification, and biogenesis of cofactors. While the highly conserved SAM-b
Autor:
Yikai Wang, Keisha Thomas, Hui Xiao, Steven C. Almo, Shoshana D. Brown, Patricia C. Babbitt, Jeffrey B. Bonanno, Jungwook Kim, Junseock Koh, Young-Sam Lee
Publikováno v:
Nucleic Acids Research
Enzyme-mediated modifications at the wobble position of tRNAs are essential for the translation of the genetic code. We report the genetic, biochemical and structural characterization of CmoB, the enzyme that recognizes the unique metabolite carboxy-
Autor:
Shoshana D. Brown, Scott C.-H. Pegg, Elaine C. Meng, Conrad C. Huang, Patricia C. Babbitt, Eyal Akiva, Michael A. Hicks, John H. Morris, David Mischel, Gemma L. Holliday, Thomas E. Ferrin
Publikováno v:
Database: The Journal of Biological Databases and Curation
Author(s): Holliday, Gemma L; Brown, Shoshana D; Akiva, Eyal; Mischel, David; Hicks, Michael A; Morris, John H; Huang, Conrad C; Meng, Elaine C; Pegg, Scott C-H; Ferrin, Thomas E; Babbitt, Patricia C | Abstract: With ever-increasing amounts of sequen
New Insights about Enzyme Evolution from Large Scale Studies of Sequence and Structure Relationships
Autor:
Patricia C. Babbitt, Shoshana D. Brown
Publikováno v:
The Journal of Biological Chemistry
Babbitt, Patricia; Brown, SD; & Babbitt, PC. (2014). New insights about enzyme evolution from large scale studies of sequence and structure relationships. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/071463h3
Babbitt, Patricia; Brown, SD; & Babbitt, PC. (2014). New insights about enzyme evolution from large scale studies of sequence and structure relationships. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/071463h3
Understanding how enzymes have evolved offers clues about their structure-function relationships and mechanisms. Here, we describe evolution of functionally diverse enzyme superfamilies, each representing a large set of sequences that evolved from a