Fasta to Pdb-seqres Sequence Converter

Input format: fasta This refers to the input FASTA file format introduced for Bill Pearson's FASTA tool, where each record starts with a '>' line. Resulting sequences have a generic alphabet by default.

Output format: pdb-seqres Reads a Protein Data Bank (PDB) file to determine the complete protein sequence as it appears in the header (no dependency on Bio.PDB and NumPy).

You can also convert between these formats by using command line tools.

On Windows install WSL, on Mac or Linux start terminal

Install BioPython

Run following script:

from Bio import SeqIO

records = SeqIO.parse("THIS_IS_YOUR_INPUT_FILE.fasta", "fasta")
count = SeqIO.write(records, "THIS_IS_YOUR_OUTPUT_FILE.pdb-seqres", "pdb-seqres")
print("Converted %i records" % count)

Or you can use this site as online fasta to pdb-seqres converter by selecting your formats & file.