A program for analyzing the binding affinity of amyloid proteins. SEMBA uses an energy function that computes the Lennard-Jones, Coulomb, and solvation energies to determine the effect of a mutation on a protein's stability.
Allows users to select density functional and basis set combinations. The Decider is a web application that is based on game theory coupled with existing benchmark data. It is composed of two mains panels that permits either to draw molecules that have to be evaluated and a to list panel that compiles the results and their scores. The platform aims to assists chemists in performing density functional theory calculations.
A web server for predicting and designing of quorum sensing peptides. QSPpred web server hosts SVM based predictive models i.e. QSPepPred, QSPepDesign and QSPepMap utilizing compositional, binary, physicochemical features and their hybrids. QSPepPred predicts the extent of an input peptide (fasta or multifasta format) as QSP or non-QSP. QSPepDesign can design all possible single position mutants of a given peptide sequence and subsequently predict their QS status. QSPepMap helps to identify potential regions in protein, which may function as QSPs. In addition, it also includes various analysis tools like QSMotifScan, MutGen, PhysicoProp and ProtFrag.
Serves as a one-stop analysis and visualization tool for bioactive peptide discovery. SpirPep can predict putative peptides via the in-silico digestion of protein up to a genome-wide level. This software exploits 13 databases of antimicrobial, anticancer and antibacterial peptides and other bioactive peptides. It features genome-wide scale inputs, a miscleavage option, the output of a number of known bioactive peptides for bioactivity identifier, the resulting peptide categorized by enzyme and an original protein tracker.
Enables construction of profiles of the potential biological activity of protein fragments. BIOPEP includes a database of biologically active peptide sequences including proteolytic processes design. This software counts quantitative descriptors as measures of the value of proteins as possible precursors of bioactive peptides. I can predict bonds susceptible to hydrolysis by endopeptidases in a protein chain.
Aims to simplify calculation of isoelectric point, hydrophilicity, or the molecular weight of a peptide. 'GenScript Peptide Property Tool' GenScript also offers a list of suggestions on the best solvent according to amino acid sequence.
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