One or more protein sequences in fasta format. Optional OX=n can be included in the FASTA header to explicitly identify the sequence Taxa ID as n, otherwise, the Taxa ID of the sequence with the highest alignment (Bits score) will be used as the query Taxa ID. Taxa IDs can be obtained from NCBI Taxonomy name/id


Live Example

  1. The potential deleteriousness effect of every possible amino acid mutation in the form of a heat-map matrix.
  2. A downloadable text file with the following columns:
    1. AC: Sequence id from the fasta header.
    2. Pos: Amino acid position.
    3. Ref: The reference amino acid.
    4. Conservation: The average LIST-S2 deleteriousness score of all possible mutations at that position.
    5. 20 columns one for each amino acid: The potential deleteriousness LIST-S2 score for mutating the reference amino acid to “this” amino acid. Scores are in the range [0 .. 1], where lower scores indicate more benign and higher indicate deleteriousness effect.


There is no ideal way to decide on a cut-off for a binary deleterious/benign decision. Since predictors are not perfect, i.e AUC is less than 1, any cut-off value is likely to leave deleterious residues identified as benign and to wrongly identify benign residues as deleterious. Therefore, we recommend that each researcher determine a cut off-value that is best suited to their tolerance of false positives/negatives. However, some users may prefer to use a generic cut-off, in this case we suggest the LIST-S2 score of 0.85 to be used as a cut-off such that mutations with a scores of 0.85 or higher to be considered as deleterious and those with a score less than 0.85 as benign.

Job Deletion Policy

Jobs will be stored for at least 14 days, afterwards they may be deleted without notice.


LIST-S2: v1.10 (2020)