Functional and informatics analysis enables glycosyltransferase activity prediction
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Benjamin G. Davis | Dianna J. Bowles | Matthew G. Davidson | G. Davies | B. G. Davis | D. Bowles | E. Lim | Gideon J. Davies | M. Davidson | M. Yang | C. Fehl | Karen Lees | W. Offen | Stephen J Roberts | Min Yang | Charlie Fehl | Karen V. Lees | Eng-Kiat Lim | Wendy A. Offen | Stephen J. Roberts | Eng‐Kiat Lim | Min Yang
[1] R. Dixon,et al. Crystal Structures of a Multifunctional Triterpene/Flavonoid Glycosyltransferase from Medicago truncatula , 2005, The Plant Cell Online.
[2] Pedro M. Coutinho,et al. The carbohydrate-active enzymes database (CAZy) in 2013 , 2013, Nucleic Acids Res..
[3] C. Guillemette,et al. Nomenclature update for the mammalian UDP glycosyltransferase (UGT) gene superfamily. , 2005, Pharmacogenetics and genomics.
[4] Ron Kohavi,et al. A Study of Cross-Validation and Bootstrap for Accuracy Estimation and Model Selection , 1995, IJCAI.
[5] R. Seenivasagam,et al. PMDB: Plant Metabolome Database—A Metabolomic Approach , 2010, Medicinal Chemistry Research.
[6] I. Longden,et al. EMBOSS: the European Molecular Biology Open Software Suite. , 2000, Trends in genetics : TIG.
[7] N. Bruce,et al. Regioselective glucosylation of aromatic compounds: screening of a recombinant glycosyltransferase library to identify biocatalysts. , 2006, Angewandte Chemie.
[8] James B. Brewer,et al. A randomized, double-blind, placebo-controlled trial of resveratrol for Alzheimer disease , 2015, Neurology.
[9] Matthew S Sigman,et al. Predicting and optimizing asymmetric catalyst performance using the principles of experimental design and steric parameters , 2011, Proceedings of the National Academy of Sciences.
[10] B. Matthews. Comparison of the predicted and observed secondary structure of T4 phage lysozyme. , 1975, Biochimica et biophysica acta.
[11] S. C. Johnson. Hierarchical clustering schemes , 1967, Psychometrika.
[12] Donald Hilvert,et al. De novo enzymes by computational design. , 2013, Current opinion in chemical biology.
[13] B. G. Davis,et al. High‐Throughput Mass‐Spectrometry Monitoring for Multisubstrate Enzymes: Determining the Kinetic Parameters and Catalytic Activities of Glycosyltransferases , 2005, Chembiochem : a European journal of chemical biology.
[14] Wolfgang H. B. Sauer,et al. Molecular Shape Diversity of Combinatorial Libraries: A Prerequisite for Broad Bioactivity , 2003, J. Chem. Inf. Comput. Sci..
[15] Wei-Guo Zhu,et al. Characterization and Prediction of Lysine (K)-Acetyl-Transferase Specific Acetylation Sites* , 2011, Molecular & Cellular Proteomics.
[16] Roberto Todeschini,et al. In Silico Prediction of Cytochrome P450-Drug Interaction: QSARs for CYP3A4 and CYP2C9 , 2016, International journal of molecular sciences.
[17] B. G. Davis,et al. Uptake of unnatural trehalose analogs as a reporter for Mycobacterium tuberculosis. , 2011, Nature chemical biology.
[18] G. Davies,et al. Characterization and engineering of the bifunctional N- and O-glucosyltransferase involved in xenobiotic metabolism in plants , 2007, Proceedings of the National Academy of Sciences.
[19] Benjamin G Davis,et al. Structural dissection and high-throughput screening of mannosylglycerate synthase , 2005, Nature Structural &Molecular Biology.
[20] Ritesh Kumar,et al. Discovery of new enzymes and metabolic pathways using structure and genome context , 2016 .
[21] M. Garcia-Conesa,et al. Resveratrol and Clinical Trials: The Crossroad from In Vitro Studies to Human Evidence , 2013, Current pharmaceutical design.
[22] M. Kanehisa,et al. Predictive genomic and metabolomic analysis for the standardization of enzyme data , 2014 .
[23] Baojian Wu,et al. Understanding substrate selectivity of human UDP-glucuronosyltransferases through QSAR modeling and analysis of homologous enzymes , 2012, Xenobiotica; the fate of foreign compounds in biological systems.
[24] D. Learmonth. A Novel, Convenient Synthesis of the 3‐O‐β‐D‐ and 4′‐O‐β‐D‐Glucopyranosides of trans‐Resveratrol , 2004 .
[25] P C Babbitt,et al. Mechanistically diverse enzyme superfamilies: the importance of chemistry in the evolution of catalysis. , 1998, Current opinion in chemical biology.
[26] G. Davies,et al. A glycosynthase catalyst for the synthesis of flavonoid glycosides. , 2007, Angewandte Chemie.
[27] G J Davies,et al. Glycosyltransferases: structures, functions, and mechanisms. , 2008, Annual review of biochemistry.
[28] William R Pearson,et al. Protein Function Prediction: Problems and Pitfalls , 2015, Current protocols in bioinformatics.
[29] Patrik Lundström,et al. Structural and functional innovations in the real-time evolution of new (βα)8 barrel enzymes , 2017, Proceedings of the National Academy of Sciences.
[30] C. Orengo,et al. Plasticity of enzyme active sites. , 2002, Trends in biochemical sciences.
[31] D. Hougaard,et al. Resveratrol reduces the levels of circulating androgen precursors but has no effect on, testosterone, dihydrotestosterone, PSA levels or prostate volume. A 4‐month randomised trial in middle‐aged men , 2015, The Prostate.
[32] Yi Li,et al. Evolution of substrate recognition across a multigene family of glycosyltransferases in Arabidopsis. , 2003, Glycobiology.
[33] M S Waterman,et al. Identification of common molecular subsequences. , 1981, Journal of molecular biology.
[34] Young-Soo Hong,et al. Enzymatic Biosynthesis of Novel Resveratrol Glucoside and Glycoside Derivatives , 2014, Applied and Environmental Microbiology.
[35] J. Thompson,et al. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. , 1997, Nucleic acids research.
[36] Juergen Pleiss,et al. Biochemical profiling in silico--predicting substrate specificities of large enzyme families. , 2006, Journal of biotechnology.
[37] P. Emsley,et al. Features and development of Coot , 2010, Acta crystallographica. Section D, Biological crystallography.
[38] Tao Wang,et al. The advancement of multidimensional QSAR for novel drug discovery - where are we headed? , 2017, Expert opinion on drug discovery.
[39] P. Ferrari,et al. Crystal structures of two human pyrophosphorylase isoforms in complexes with UDPGlc(Gal)NAc: role of the alternatively spliced insert in the enzyme oligomeric assembly and active site architecture , 2001, The EMBO journal.
[40] William R Pearson,et al. Selecting the Right Similarity‐Scoring Matrix , 2013, Current protocols in bioinformatics.
[41] C. Ford,et al. Structure of a flavonoid glucosyltransferase reveals the basis for plant natural product modification , 2006 .
[42] D. Higgins,et al. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega , 2011, Molecular systems biology.
[43] J. Errey,et al. Probing the breadth of macrolide glycosyltransferases: in vitro remodeling of a polyketide antibiotic creates active bacterial uptake and enhances potency. , 2005, Journal of the American Chemical Society.
[44] Kathleen Marchal,et al. A network-based approach to identify substrate classes of bacterial glycosyltransferases , 2014, BMC Genomics.
[45] Yang Zhang,et al. I-TASSER: a unified platform for automated protein structure and function prediction , 2010, Nature Protocols.
[46] L. Heide. The aminocoumarins: biosynthesis and biology. , 2009, Natural product reports.
[47] R. Dixon,et al. Crystal structures of glycosyltransferase UGT78G1 reveal the molecular basis for glycosylation and deglycosylation of (iso)flavonoids. , 2009, Journal of molecular biology.
[48] Søren Bak,et al. Substrate specificity of plant UDP-dependent glycosyltransferases predicted from crystal structures and homology modeling. , 2009, Phytochemistry.
[49] D. Bowles,et al. Identification of Glucosyltransferase Genes Involved in Sinapate Metabolism and Lignin Synthesis in Arabidopsis * , 2001, The Journal of Biological Chemistry.
[50] Takao Yokota,et al. Plant foods and herbal sources of resveratrol. , 2002, Journal of agricultural and food chemistry.
[51] R. Dixon,et al. A functional genomics approach to (iso)flavonoid glycosylation in the model legume Medicago truncatula , 2007, Plant Molecular Biology.
[52] D. Heider,et al. Bacterial Glycosyltransferases: Challenges and Opportunities of a Highly Diverse Enzyme Class Toward Tailoring Natural Products , 2016, Front. Microbiol..
[53] C. Busch,et al. Resveratrol as a Pan-HDAC Inhibitor Alters the Acetylation Status of Jistone Proteins in Human-Derived Hepatoblastoma Cells , 2013, PloS one.
[54] C. Kleanthous,et al. A Kinetic Analysis of Regiospecific Glucosylation by Two Glycosyltransferases of Arabidopsis thaliana , 2008, Journal of Biological Chemistry.
[55] David S. Wishart,et al. DrugBank 4.0: shedding new light on drug metabolism , 2013, Nucleic Acids Res..
[56] T. Gloster. Advances in understanding glycosyltransferases from a structural perspective , 2014, Current opinion in structural biology.
[57] J. Aubé,et al. Probing Chemical Space with Alkaloid-Inspired Libraries , 2014, Nature chemistry.
[58] R. Marmorstein,et al. Structure and mechanism of non‐histone protein acetyltransferase enzymes , 2013, The FEBS journal.
[59] Annabel E. Todd,et al. Evolution of function in protein superfamilies, from a structural perspective. , 2001, Journal of molecular biology.
[60] G. Davies,et al. Conformational analyses of the reaction coordinate of glycosidases. , 2012, Accounts of chemical research.
[61] S. Baldauf,et al. Phylogenetic Analysis of the UDP-glycosyltransferase Multigene Family of Arabidopsis thaliana * 210 , 2001, The Journal of Biological Chemistry.
[62] J. Rini,et al. X‐ray crystal structure of rabbit N‐acetylglucosaminyltransferase I: catalytic mechanism and a new protein superfamily , 2000, The EMBO journal.