In message <9210280041.AA23415 at net.bio.net> David Lapointe,
lapointe at uthscsa.edu, asked
> is there a way to make a sequence
> comparison (protein) against sequences from a structural database, NRL_3D
> for example.
Yes. On October 1 we announced that we had added the ability to conduct
FASTA searches against the NRL_3D database only, as opposed to the normal
suite of PIR1 + PIR2 + PIR3 + NRL_3D + PATCHX. Here is the full text of
that announcement.
| 5. FASTA Searches for NRL_3D Only
|| Some users had suggested that they wanted to do FASTA sequence searches
| only for the sequences with known 3-dimensional structures, the sequences
| extracted from the Brookhaven Protein Data Bank in NRL_3D. Normally our
| FASTA searches are done against all the protein databases, PIR1, PIR2, PIR3,
| the non-redundant PATCHX (described in the August announcement and in part 2
| above) and NRL_3D. Now when the command
| USE BASES NRL_3D
| is used before a SEARCH command, only the NRL_3D database will be used for
| the FASTA search. Otherwise, all the protein databases will be used.
|| Thanks to Ada Prochnicka-Chalufour at the Pasteur Institute for her helpful
| suggestion and her hospitality this spring.
------------------------------------------------------------------------
Dr. John S. Garavelli
Database Coordinator
Protein Information Resource
National Biomedical Research Foundation
Washington, DC 20007
POSTMASTER at GUNBRF.BITNETPOSTMASTER at NBRF.Georgetown.Edu
