: TopPIC Suite contains the following tools:ġ. ![]() Coli, Saccharomyces cerevisiae, Bos taurus, Mus musculus, Neurospora crassa, Canis lupus familiaris, Gallus gallus, Caldicelluosiruptor kristjanssonii, Thermotoga petrophilia, Clostridium termitidis, Pseudomonas aeruginosa, Caldicellulosiruptor saccharoylticus, Acinetobacter baumannii, Thermoanaerobacter thermohydrosulfuricus, Ralstonia eutropha, Clostridium butryricum, Pseudomonas putida, Thermobifida fusca, Yarrowia lioplytica, and Clostridium thermocellum. And, can predict retention for the following chemical modifications: N-terminal cyclization for Gln and Cys alkylated with Iodoacetamide, Methionine oxidation, six types of alkylation chemistries for Cys, TMT, and iTRAQ labels. The SSRCalc algorithm uses retention coefficients summation of the individual amino acids and computes retention coefficients for amino acids at the N-terminal of the peptide, at the C-terminal of the peptide, peptide lengths, hydrophobicity, the nearest-neighbor effect for charged residues, and peptide propensity to form amphipathic helical structures. : SSRCalc (Sequence-Specific Retention Calculator), SSRCalcQ (see links below) are a tools to predict peptides’ behavior in reversed-phase HPLC data, such as prediction of retention filtering, method development for targeted (SRM) and data-independent (SWATH, MSE) in LC-MS, and analytical applications of peptide RP-HPLC.
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