ArticleBMC bioinformatics2009
The PHA Depolymerase Engineering Database: A systematic analysis tool for the diverse family of polyhydroxyalkanoate (PHA) depolymerases.
Article in BMC bioinformatics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
56 citing papers in PubMed, 153 citations in OpenAlex.
- Microbial synthesis and degradation of bio-based biodegradable plastics.Nature reviews. Microbiology · 2026Review
- Animal degradation of microbial storage polyhydroxyalkanoates.Nature ecology & evolution · 2026Article
- RefiningMicrobial genomics · 2026Article
- Article
- Study of Microbial Communities in the Soda Lake of Isabel Island: Identification of Polyhydroxybutyrate (PHB) Degrading Enzymes.Environmental microbiology reports · 2026Article
- Bacterial family-VIII esterase displays dual activities: hydrolysis of polyester bioplastics and β-lactam antibiotics.The ISME journal · 2026Article
- Enzymatic and environmental degradation of natural rubber-PHBV polymer blends.Biodegradation · 2026Article
- Engineered microbes to enable a circular economy for biodegradable plastics.Frontiers in microbiology · 2026Review
- Genomic and structural insights into the high-efficiency poly(3-hydroxybutyrate) biodegradation inFrontiers in microbiology · 2026Article
- Life cycle design of polyhydroxyalkanoates (PHA).National science review · 2025Review
- Isolation of marine bacteria with potential for polyhydroxyalkanoate degradation and optimization for enzyme production.Scientific reports · 2025Article
- Biodegradation of polyhydroxyalkanoates: current state and future prospects.Frontiers in microbiology · 2025Review
- Demystifying polyphosphate-accumulating organisms relevant to wastewater treatment: A review of their phylogeny, metabolism, and detection.Environmental science and ecotechnology · 2024Review
- Polyhydroxyalkanoate involvement in stress-survival of two psychrophilic bacterial strains from the High Arctic.Applied microbiology and biotechnology · 2024Article
- Genetic engineering of low-temperature polyhydroxyalkanoate production by Acidovorax sp. A1169, a psychrophile isolated from a subglacial outflow.Extremophiles : life under extreme conditions · 2023Article
- High-throughput experimentation for discovery of biodegradable polyesters.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Polymer-Degrading Enzymes ofInternational journal of molecular sciences · 2023Article
- Genomic and phenotypic comparison of polyhydroxyalkanoates producing strains of genusComputational and structural biotechnology journal · 2023Article
- Novel bacterial taxa in a minimal lignocellulolytic consortium and their potential for lignin and plastics transformation.ISME communications · 2022Article
- Reconstruction and optimization of aFrontiers in bioengineering and biotechnology · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPolyhydroxyalkanoates (PHAs) can be degraded by many microorganisms using intra- or extracellular PHA depolymerases. PHA depolymerases are very diverse in sequence and substrate specificity, but share a common alpha/beta-hydrolase fold and a catalytic triad, which is also found in other alpha/beta-hydrolases.
resultsThe PHA Depolymerase Engineering Database (DED, http://www.ded.uni-stuttgart.de) has been established as a tool for systematic analysis of this enzyme family. The DED contains sequence entries of 587 PHA depolymerases, which were assigned to 8 superfamilies and 38 homologous families based on their sequence similarity. For each family, multiple sequence alignments and profile hidden Markov models are provided, and functionally relevant residues are annotated.
conclusionThe DED is a valuable tool which can be applied to identify new PHA depolymerase sequences from complete genomes in silico, to classify PHA depolymerases, to predict their biochemical properties, and to design enzyme variants with improved properties.
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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.