Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2002 Jan 1;30(1):200-2.
doi: 10.1093/nar/30.1.200.

ASPD (Artificially Selected Proteins/Peptides Database): a database of proteins and peptides evolved in vitro

Vadim P Valuev  1 , Dmitry A Afonnikov, Mikhail P Ponomarenko, Luciano Milanesi, Nikolay A Kolchanov
Affiliations

ASPD (Artificially Selected Proteins/Peptides Database): a database of proteins and peptides evolved in vitro

Vadim P Valuev et al. Nucleic Acids Res. .

Abstract

ASPD is a new curated database that incorporates data on full-length proteins, protein domains and peptides that were obtained through in vitro directed evolution processes (mainly by means of phage display). At present, the ASPD database contains data on 195 selection experiments, which were described in 112 original papers. For each experiment, the following information is given: (i) description of the target for binding, (ii) description of the protein or peptide which serves as the template for library construction and description of the native protein which binds the target, (iii) links to the major proteomic databases (SWISS-PROT, PDB, PROSITE and ENZYME), (iv) keywords referring to the biological significance of the experiment, (v) aligned sequences of proteins or peptides retrieved through in vitro evolution and relevant native or constructed sequences, (vi) the number of rounds of selection/amplification and (vii) the number of occurrences of clones with each sequence. The literature data include a full reference, a link to the MEDLINE database and the name of the corresponding author with his email address. ASPD has a user-friendly interface which allows for simple queries using the names of proteins and ligands, as well as keywords describing the biological role of the interaction studied, and also for queries based on authors' names. It is also possible to access the database by means of the SRS system, allowing complex queries. There is a BLAST search tool against the ASPD for looking directly for homologous sequences. Research tools of the ASPD allow the analysis of pairwise correlations in the sequences of proteins and peptides selected against one target. The URL for the ASPD database is http://www.sgi.sscc.ru/mgs/gnw/aspd/.

PubMed Disclaimer

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. Roberts R.W. and Ja,W.W. (1999) In vitro selection of nucleic acids and proteins: what are we learning? Curr. Opin. Struct. Biol., 9, 521–529. - PubMed
    1. Smith G.P. and Scott,J.K. (1993) Libraries of peptides and proteins displayed on filamentous phage. Methods Enzymol., 217, 228–257. - PubMed
    1. Bairoch A. and Apweiler,R. (2000) The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res., 28, 45–48. - PMC - PubMed
    1. Berman H.M., Westbrook,J., Feng,Z., Gilliland,G., Bhat,T.N., Weissig,H., Shindyalov,I.N. and Bourne,P.E. (2000) The Protein Data Bank. Nucleic Acids Res., 28, 235–242. Updated article in this issue: Nucleic Acids Res. (2002), 30, 245–248. - PMC - PubMed
    1. Hofmann K., Bucher,P., Falquet,L. and Bairoch,A. (1999) The PROSITE database, its status in 1999. Nucleic Acids Res., 27, 215–219. Updated article in this issue: Nucleic Acids Res. (2002), 30, 235–238. - PMC - PubMed

Publication types