Domain-centric dissection and classification of prokaryotic poly(3-hydroxyalkanoate) synthases
Liu, Z.; Zhu, Z.; Yang, J.; Wu, S.; Liu, Q.; Wang, M.; Cheng, H.; Yan, J.; Wang, L.
Show abstract
Although many enzymes and multiple pathways involve in Polyhydroxyalkanoates (PHAs) synthesis, PHA synthases play a determinant role in the process, which include three subunits of PhaC, PhaE, and PhaR. Currently, PHA synthases are categorized into four classes according to its primary sequences, substrate specificity, and subunit composition. However, theoretical analysis of PHA synthases from the domain perspective has not been performed. In this study, we dissected PHA synthases thoroughly through analysis of domain organization. Both referenced bacterial and archaeal proteomes were then screened for the presence and absence of different PHA synthases along NCBI taxonomy ID-based phylogenetic tree. In addition, sequences annotated as bacterial and archaeal PhaCs in UniProt database were also analyzed for domain organizations and interactions. In sum, the in-silico study provided a better understanding of the domain features of PHA synthases in prokaryotes, which also assisted in the production of PHA polymers with optimized chemical properties.
Matching journals
The top 7 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Analysis of secondary metabolite gene clusters and chitin biosynthesis pathways of Monascus purpureus with high production of pigment and citrinin based on whole-genome sequencing 96%
- Characterization of BLUF-photoreceptors present in Acinetobacter nosocomialis. 95%
- Comparative in silico analysis of ftsZ gene from different bacteria reveals the preference for core set of codons in coding sequence structuring and secondary structural elements determination 95%
Similar papers in this journal
- Small RNA profiling in Mycobacterium insights into stress adapt ability 95%
- Listening to bacterial Esperanto: transcriptome reprogramming in a plant beneficial rhizobacterium 94%
- Description, taxonomy, and comparative genomics of a novel Thermoleptolyngbya strain isolated from hot springs of Ganzi, Sichuan China. 94%
Similar papers in this journal
- Investigation of a night soil compost psychrotrophic bacterium Glutamicibacter arilaitensis LJH19 for its safety, efficient hydrolytic and plant growth-promoting potential 95%
- The Molecular Mass and Isoelectric Point of Plant Proteomes 95%
- Distribution and diversity of dimetal-carboxylate halogenases in cyanobacteria 93%
Similar papers in this journal
- Genomic architecture of three newly isolated unclassified Butyrivibrio species elucidate their potential role in the rumen ecosystem 95%
- Extreme genome selection towards complete antimicrobial resistance in a nosocomial strain of Stenotrophomonas maltophilia complex 93%
- Deep phylo-taxono genomics reveals Xylella as a variant lineage of plant associated Xanthomonas with Stenotrophomonas and Pseudoxanthomonas as misclassified relatives 93%
Similar papers in this journal
- Characterization and description of Faecalibacterium butyricigenerans sp. nov. and F. longum sp. nov., isolated from human faeces 95%
- Comparative genome analysis of a multidrug-resistant Pseudomonas aeruginosa sequence type 277 clone that harbours two copies of the blaSPM-1 gene and multiple single nucleotide polymorphisms in other resistance-associated genes 95%
- A glimpse of antimicrobial resistance gene diversity in kefir and yoghurt 94%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.