{"id":43,"date":"2014-10-28T15:59:40","date_gmt":"2014-10-28T15:59:40","guid":{"rendered":"https:\/\/protsci-us2b.univ-nantes.fr\/imut\/?page_id=43"},"modified":"2023-05-03T08:42:42","modified_gmt":"2023-05-03T08:42:42","slug":"imut-saturatecombine","status":"publish","type":"page","link":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/?page_id=43","title":{"rendered":"Combinatorial SSM"},"content":{"rendered":"

Description<\/h2>\n

This tool combines point mutations obtained by site saturation mutagenesis. It performs permutations with the submitted positions and mutations. A new sequence is generated for each combination.<\/p>\n

Three different modes for the treatment of mutations & positions are proposed:<\/p>\n\n\n\n\n\n\n
Mode<\/strong><\/td>\n Operation<\/strong><\/td>\n Input example<\/strong><\/td>\n<\/tr>\n
Default saturation mode<\/td>\npermutations with 19 amino<\/td>\n3<\/td>\n<\/tr>\n
Exclusive saturation mode<\/td>\npermutations with 19 amino-acid minus n selected<\/td>\n3,A-<\/td>\n<\/tr>\n
Inclusion saturation mode<\/td>\npermutations only n selected amino-acid<\/td>\n3,A+<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n

Examples<\/h2>\n
    \n
  1. To do permutations with all the 20 amino-acids at positions 3 and 4:<\/li>\n
      \n
    • type 3 and 4 on separate lines in the mutation position<\/em> text box<\/li>\n<\/ul>\n
    • To do permutations with all the amino-acids excluding A at position 3:<\/li>\n
        \n
      • type 3,A- in the mutation position<\/em> text box<\/li>\n<\/ul>\n
      • To do permutations with only A at position 3:<\/li>\n
          \n
        • type 3,A+ in the mutation position<\/em> text box<\/li>\n<\/ul>\n
        • To do permutations with all the amino-acids excluding A, E, F at position 3:<\/li>\n
            \n
          • type 3,A-E-F in the mutation position<\/em> text box<\/li>\n

            . Do not add a “minus” sign after the letter F.<\/ul>\n

          • To do permutations with only A, E, F at position 3:<\/li>\n
              \n
            • type 3,A+E+F in the mutation position<\/em> text box<\/li>\n

              . Do not add a “plus” sign after the letter F.<\/ul>\n

            • To do permutations with all the amino-acids excluding A, E, F at position 3 & all amino acids in position 4 & only A, E, F in position 5:<\/li>\n
                \n
              • type the following 3 lines <\/strong>in the mutation position<\/em> text box<\/li>\n
              • 3,A-E-F<\/li>\n
              • 4<\/li>\n
              • 5,A+E+F<\/li>\n<\/ul>\n<\/ol>\n
                \n\n\n\n\n\n
                Mutation position<\/strong><\/td>\nSequence<\/strong><\/td>\n<\/tr>\n
                Write one mutation position<\/strong> per line<\/td>\nWrite your sequence in the textbox or upload<\/td>\n<\/tr>\n