PupDB: A database of pupylated proteins

Research output: Contribution to journalArticle

29 Citations (Scopus)

Abstract

Background: Prokaryotic ubiquitin-like protein (Pup), the firstly identified post-translational protein modifier in prokaryotes, is an important signal for the selective degradation of proteins. Recently, large-scale proteomics technology has been applied to identify a large number of pupylated proteins. The development of a database for managing pupylated proteins and pupylation sites is important for further analyses.Description: A database named PupDB is constructed by collecting experimentally identified pupylated proteins and pupylation sites from published studies and integrating the information of pupylated proteins with corresponding structures and functional annotations. PupDB is a web-based database with tools for browses and searches of pupylated proteins and interactive displays of protein structures and pupylation sites.Conclusions: The structured and searchable database PupDB is expected to provide a useful resource for further analyzing the substrate specificity, identifying pupylated proteins in other organisms and developing computational tools for predicting pupylation sites. PupDB is freely available at http://cwtung.kmu.edu.tw/pupdb.

Original languageEnglish
Article number40
JournalBMC Bioinformatics
Volume13
Issue number1
DOIs
Publication statusPublished - Mar 16 2012
Externally publishedYes

Fingerprint

Protein Databases
Proteins
Protein
Databases
Ubiquitins
Substrate Specificity
Proteomics
Protein Structure
Proteolysis
Web-based
Specificity
Annotation
Display
Degradation
Technology
Display devices
Substrate
Resources

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Applied Mathematics
  • Structural Biology

Cite this

PupDB : A database of pupylated proteins. / Tung, Chun Wei.

In: BMC Bioinformatics, Vol. 13, No. 1, 40, 16.03.2012.

Research output: Contribution to journalArticle

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