BIOFIN
Prediction of Biofilm-Inhibiting Peptides
Peptide Prediction | Protein Scan | BIP Mapping | Similarity Search |
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Peptide Prediction |
This page is designed to facilitate user to predict Biofilm inhibitory response of given peptide. User can paste the query peptide sequence in the box of can upload in the Fasta format. The Threshold value can be altered from -1.0 to 1.0 with 0.1 step size, to set the stringency of predictions. Click Submit button to view the result page.. |
In the result page of Peptide prediction, query peptides are listed with scores of prediction and the predicton result(Biofilm inhibitory or negative). Results can be downloaded. User can click on a peptide for its virtual screening, a process which predict the biofilm inhibitory property of all of its variants. |
Virtual screening will create all the variants of input peptide by substituting each position of it with the all 19 other naturally occuring aminoacids. If 'n' number of aminoacids are present in the input peptide, prediction results of 'n x 19' variant peptides will be shown in tabular format. |
Protein Scan |
This page is designed to facilitate user to scan the presence of biofilm inhibitory sequences in a protein. Query by pasting one or more protein sequences in Fasta format or upload a Fasta file as shown below. User can change the window length of the peptide sequences, between 4 and 45, used for prediction. The Threshold value can be altered from -1.0 to 1.0 with 0.1 step size, to set the stringency of predictions. Click Submit button to view the result page. |
In the result page of Protein scan, query peptides are listed with scores of prediction and the predicton result(Biofilm inhibitory or negative). Results can be downloaded. User can click on a peptide for its virtual screening, a process which predict the biofilm inhibitory property of all of its variants. |
Virtual screening will create all the variants of input peptide by substituting each position of it with the all 19 other naturally occuring aminoacids. If 'n' number of aminoacids are present in the input peptide, prediction results of 'n x 19' variant peptides will be shown in tabular format. |
BIP Mapping |
This page is designed to facilitate user to map experimentally validated Biofilm inhibitory peptides, into protein/peptide sequences of interest. Query by pasting one or more sequences in Fasta format or upload a Fasta file as shown below. Click Submit button to view the result page. |
In the result page of Epitope mapping, query sequences are aligned with experimentally validated peptides from BaAMP(Biofilm-active AMPs) database. BaAMP and NCBI IDs of matched peptides are given with alignments. |
Similarity Search |
This page is designed to facilitate user to do Similarity Search of sequence of interest, against experimantaly validated biofilm active peptides in BaAMP(Biofilm-active AMPs) database. User is allowed to query by pasting one or more peptide sequences in Fasta format or upload a Fasta file as shown below. Click Submit button to view the result page. |
In the result page of Similarity Search, unlike exact peptide mapping, peptides with similar sequence of query are matched. Scores for all matches are shown. Click on the link to BaAMP(Biofilm-active AMPs) database.for viewing the details of matched peptides. Alignment of matched peptides with the query sequences are also shown. |