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Hi Careina, There are several places on the web that describe the PIR format (also called NBRF) E.g. http://www.ebi.ac.uk/help/formats.html#pir http://www.bioinformatics.nl/tools/crab_pir.html etc. The program readseq -- either via command line or webserver -- e.g. http://www.ebi.ac.uk/cgi-bin/readseq.cgi http://iubio.bio.indiana.edu/cgi-bin/readseq.cgi http://iubio.bio.indiana.edu/soft/molbio/readseq/java can convert from many formats into PIR format (called NBRF for output choice). Or you can convert from fasta to pir pretty easy with a text editor if it is just something you do occasionally. However, since you mentioned that you wanted a pir format file for use with arp/warp. I should mention that arp/warp will only accept .pir files with a blank comment line (i.e. the line after the 1st line (which starts >P1;) must be blank rather than containing a free text description of the sequence). Regards, Mitch -----Original Message----- From: CCP4 bulletin board [mailto:[log in to unmask]] On Behalf Of Careina Edgooms Sent: Thursday, February 17, 2011 9:57 PM To: [log in to unmask] Subject: [ccp4bb] .pir file Dear CCP4 mailing list I have a relatively simple question. How do I get sequence file in .pir format which is required for many programs? I normally use fasta format but some programs eg arpwarp do not allow me to use that Thanks for your help Careina