COPS—Cis/transpeptide bond conformation prediction of amino acids on the basis of secondary structure information

• DOI: 10.1093/bioinformatics/bti089
• Publication Date: 2004-10-28T00:23:01Z
• Authors: Doreen Pahlke; Dietmar Leitner; Urs Wiedemann; Dirk Labudde
• Keywords: Basis (linear algebra); Peptide bond

Abstract Summary: COPS predicts for all 20 naturally occurring amino acids whether the peptide bond in a protein is cis or trans conformation. The algorithm based only on secondary structure information of acid triplets without considering sequence information. Conformation parameters are derived from solved 3D structures deposited PDB and led to propensities modified Chou–Fasman parameters. analyses taking their respective into consideration upon application set rules utilizing conformation parameters, N-terminal middle residue predicted. was tested random selection datasets. Availability: program further freely available FMP website at http://www.fmp-berlin.de/nmr/cops Contact: [e-mail]