Osnova sekce

◄Topic 2 _ Protein bioinformatics I
►Topic 4_Protein bioinformatics III


    • Simulation of protease cleavage

      PeptideCutter:  predicts potential cleavage sites cleaved by proteases or chemicals in a given protein sequence. 

    • Searching for protein motives and domains

      Searching databases for typical protein motifs/conserved domains enables the annotation of functional units in proteins, providing insights into sequence/structure/function relationships.

      Conserved domain database: NCBI/CD

      Other databases for domain search: SMART, InterPro

    • Signal peptides

      The prediction of protein localization by recognizing signal peptide on the protein N-terminus. SignalP 

    • Prediction of transmembrane helices

      Prediction is based on amino acid hydrophobicity and probability.

      Hydrofobicity profile: Expasy/ProtScale

      Transmembrane helices prediction: TMHMM, Phobius, TopCons (multiple programs consensus), CCTOP

      Figures: PROTTER

    • Example of substitution matrix Stránka
    • Lesson 3 -pdf Soubor
    • HW3 : Protein analyses Úkol
◄Topic 2 _ Protein bioinformatics I
►Topic 4_Protein bioinformatics III