biopython

v1.71.0

biopython v1.71.0 Bio.PDB.PSEA

Wrappers for PSEA, a program for secondary structure assignment.

See this citation for P-SEA, PMID: 9183534

Labesse G, Colloc’h N, Pothier J, Mornon J-P: P-SEA: a new efficient assignment of secondary structure from C_alpha. Comput Appl Biosci 1997 , 13:291-295

ftp://ftp.lmcp.jussieu.fr/pub/sincris/software/protein/p-sea/

Link to this section Summary

Functions

annotate()

Apply seconardary structure information to residues in model

psea()

Parse PSEA output file

psea2HEC()

Translate PSEA secondary structure string into HEC

run_psea()

Run PSEA and return output filename

Link to this section Functions

Link to this function annotate()

Apply seconardary structure information to residues in model.

Link to this function psea()

Parse PSEA output file.

Link to this function psea2HEC()

Translate PSEA secondary structure string into HEC.

Link to this function run_psea()

Run PSEA and return output filename.

Note that this assumes the P-SEA binary is called “psea” and that it is on the path.

Note that P-SEA will write an output file in the current directory using the input filename with extension “.sea”.

Note that P-SEA will write output to the terminal while run.