title: A practical approach for computing the active site of the ribonucleoside hydrolase of E. coli encoded by rihC.
abstract: We predict the potential active and catalytic sites, the transition state and how it is stabilized, and the mechanism of rihC ribonucleoside hydrolase of E. coli. Our approach is based on well-known primary sequence analysis techniques. A canonically associated extreme value distribution is used to assess the significance of the prediction. Parameters for the extreme value distribution are computed directly from data. Our practical approach is consistent with known results in the literature. We obtain BLOSUM matrices in a way that is intrinsically tied to the data base, and we employ user-friendly techniques that should be applicable to a range of medically significant scenarios.
authors.affiliation: Middle Tennessee State University, Murfreesboro, Tennessee 37132, USA. afarone@mtsu.edu
authors.forename: Anthony
authors.initials: A
authors.lastname: Farone
authors.forename: Mary
authors.initials: M
authors.lastname: Farone
authors.forename: Paul
authors.initials: P
authors.lastname: Kline
authors.forename: Terrance
authors.initials: T
authors.lastname: Quinn
authors.forename: Zachariah
authors.initials: Z
authors.lastname: Sinkala
mesh_terms: D000465:Algorithms; D020134:Catalytic Domain / Q000235:genetics; D019295:Computational Biology; D016831:Crithidia fasciculata / Q000201:enzymology / Q000235:genetics; D004926:Escherichia coli / Q000201:enzymology* / Q000235:genetics*; D029968:Escherichia coli Proteins / Q000737:chemistry* / Q000235:genetics*; D005798:Genes, Bacterial; D009699:N-Glycosyl Hydrolases / Q000737:chemistry* / Q000235:genetics*; D020539:Sequence Analysis, Protein / Q000706:statistics & numerical data*
chemical_list: D029968:Escherichia coli Proteins; D009699:N-Glycosyl Hydrolases; C422989:RihC protein, E coli; C096466:inosine-uridine hydrolase