LocSigDB: A database of protein localization signals

Simarjeet Negi, Sanjit Pandey, Satish M. Srinivasan, Akram Mohammed, Chittibabu Guda

Research output: Contribution to journalArticle

17 Citations (Scopus)

Abstract

LocSigDB (http://genome.unmc.edu/LocSigDB/) is a manually curated database of experimental protein localization signals for eight distinct subcellular locations; primarily in a eukaryotic cell with brief coverage of bacterial proteins. Proteins must be localized at their appropriate subcellular compartment to perform their desired function. Mislocalization of proteins to unintended locations is a causative factor for many human diseases; therefore, collection of known sorting signals will help support many important areas of biomedical research. By performing an extensive literature study, we compiled a collection of 533 experimentally determined localization signals, along with the proteins that harbor such signals. Each signal in the LocSigDB is annotated with its localization, source, PubMed references and is linked to the proteins in UniProt database along with the organism information that contain the same amino acid pattern as the given signal. From LocSigDB webserver, users can download the whole database or browse/search for data using an intuitive query interface. To date, LocSigDB is the most comprehensive compendium of protein localization signals for eight distinct subcellular locations.

Original languageEnglish (US)
Article numberbav003
JournalDatabase
Volume2015
DOIs
StatePublished - Jan 1 2015

Fingerprint

Protein Databases
Proteins
proteins
Databases
Bacterial Proteins
Eukaryotic Cells
bacterial proteins
PubMed
biomedical research
Biomedical Research
Ports and harbors
Sorting
human diseases
sorting
eukaryotic cells
Amino acids
Genome
Amino Acids
Genes
amino acids

ASJC Scopus subject areas

  • Information Systems
  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Negi, S., Pandey, S., Srinivasan, S. M., Mohammed, A., & Guda, C. (2015). LocSigDB: A database of protein localization signals. Database, 2015, [bav003]. https://doi.org/10.1093/database/bav003

LocSigDB : A database of protein localization signals. / Negi, Simarjeet; Pandey, Sanjit; Srinivasan, Satish M.; Mohammed, Akram; Guda, Chittibabu.

In: Database, Vol. 2015, bav003, 01.01.2015.

Research output: Contribution to journalArticle

Negi, S, Pandey, S, Srinivasan, SM, Mohammed, A & Guda, C 2015, 'LocSigDB: A database of protein localization signals', Database, vol. 2015, bav003. https://doi.org/10.1093/database/bav003
Negi S, Pandey S, Srinivasan SM, Mohammed A, Guda C. LocSigDB: A database of protein localization signals. Database. 2015 Jan 1;2015. bav003. https://doi.org/10.1093/database/bav003
Negi, Simarjeet ; Pandey, Sanjit ; Srinivasan, Satish M. ; Mohammed, Akram ; Guda, Chittibabu. / LocSigDB : A database of protein localization signals. In: Database. 2015 ; Vol. 2015.
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