CLIPepPI

CLIPepPI Web Server Help Guide

CLIPepPI provides sequence embeddings for domains and peptides, as well as predicted binding scores for domain–peptide pairs. The sections below describe the input formats and expected output.

Domain

Sequence

Check this option to compute embedding for a domain sequence.

Example: IREERLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKVKRHGQRIGRRSDWKKAYVT

CSV file header: id, entry format

Interface

Provide 0-based residue indices that participate in the interface. This input is optional.

Example: "69,70,71"

Peptide

Check this option to compute embedding for peptide sequence(s).

Example: NNRPVYIPRPRPPHPRL,ASPLKQQRIRQKVEKL,AWIP

CSV file header: id, entry format

Score

Get CLIPepPI scores for domain-peptide(s). The score corresponds to the predicted binding plausibility. Generally, Scores higher than 0.2 indicate probable binding, and scores lower than -0.2 indicate a non-binder.

Example:

Domain: IREERLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKVKRHGQRIGRRSDWKKAYVT