ArticleBMC bioinformatics2012
PupDB: a database of pupylated proteins.
Article in BMC bioinformatics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
22 citing papers in PubMed, 37 citations in OpenAlex.
- Lysine deserts and cullin-RING ligase receptors: Navigating untrodden paths in proteostasis.iScience · 2023Article
- Identifying Pupylation Proteins and Sites by Incorporating Multiple Methods.Frontiers in endocrinology · 2022Article
- PUP-Fuse: Prediction of Protein Pupylation Sites by Integrating Multiple Sequence Representations.International journal of molecular sciences · 2021Article
- PupStruct: Prediction of Pupylated Lysine Residues Using Structural Properties of Amino Acids.Genes · 2020Article
- Network Analysis Reveals TNF as a Major Hub of Reactive Inflammation Following Spinal Cord Injury.Scientific reports · 2019Article
- Recognition of Protein Pupylation Sites by Adopting Resampling Approach.Molecules (Basel, Switzerland) · 2018Article
- Systems proteomics approaches to study bacterial pathogens: application to Mycobacterium tuberculosis.Current opinion in microbiology · 2017Review
- EPuL: An Enhanced Positive-Unlabeled Learning Algorithm for the Prediction of Pupylation Sites.Molecules (Basel, Switzerland) · 2017Article
- dbPTM 2016: 10-year anniversary of a resource for post-translational modification of proteins.Nucleic acids research · 2016Article
- Positive-Unlabeled Learning for Pupylation Sites Prediction.BioMed research international · 2016Article
- A time-resolved Förster resonance energy transfer assay to measure activity of the deamidase of the prokaryotic ubiquitin-like protein.Analytical biochemistry · 2015Article
- Genetic and Proteomic Analyses of Pupylation in Streptomyces coelicolor.Journal of bacteriology · 2015Article
- Computational Identification of Protein Pupylation Sites by Using Profile-Based Composition of k-Spaced Amino Acid Pairs.PloS one · 2015Article
- Fit-for-purpose curated database application in mass spectrometry-based targeted protein identification and validation.BMC research notes · 2014Article
- Toward Understanding the Essence of Post-Translational Modifications for the Mycobacterium tuberculosis Immunoproteome.Frontiers in immunology · 2014Review
- Prokaryotic ubiquitin-like protein modification.Annual review of microbiology · 2014Review
- Fluorescent probes reveal a minimal ligase recognition motif in the prokaryotic ubiquitin-like protein from Mycobacterium tuberculosis.Journal of the American Chemical Society · 2013Article
- DbPTM 3.0: an informative resource for investigating substrate site specificity and functional association of protein post-translational modifications.Nucleic acids research · 2013Article
- Position-specific analysis and prediction of protein pupylation sites based on multiple features.BioMed research international · 2013Article
- Review
Corrections and comments
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Authors and funding
1 author at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundProkaryotic 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.
conclusionsThe 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.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.