twopin
commented
2 years ago Hi, What's your version of SSPro? The version I used to calculate the secondary structures can solve cases that have lengths shorter than 30. The version information is as follow:
Author(s) : Christophe Magnan (cmagnan@ics.uci.edu) Copyright : Institute for Genomics and Bioinformatics University of California, Irvine Modified : 2018/11/24
==================================================================================================== Method Description
SCRATCH-1D is a suite of one-dimensional predictors included in the long-established and widely used SCRATCH suite of predictors developed by the Institute for Genomics and Bioinformatics (IGB) of the University of California, Irvine (UCI) : http://scratch.proteomics.ics.uci.edu
SCRATCH-1D currently includes the following predictors and tools:
- SSpro Release 5.2 Protein secondary structure prediction (3-class)
-
SSpro8 Release 5.2 Protein secondary structure prediction (8-class) ...
Release Notes====================================================================================================
Version 1.2 (2018)
Author : Christophe Magnan Description : update of the package databases Comments : PROFILpro protein database UNIREF50 updated HOMOLpro template database pdb_full updated
hello, the SSpro program in the SCRATCH-1D suite was needed the protein sequence is at least 30 amino acids in length, but many peptides in the provied sample data are less than that number in length, i wonder konw how to deal with those peptides using SSpro program. thx!