A curated collection of chaperonin sequence data collected from public databases or generated by a network of collaborators exploiting the cpn60 target in clinical, phylogenetic and microbial ecology studies.
Provides data and analytics portal focuses on taxonomy, ecology, genomics and metagenomics. EZioCloud is an integrated database with a complete taxonomic hierarchy of the Bacteria and Archaea represented by 16S rRNA gene and genome sequences. All genomes were identified taxonomically at the kind, species or subspecies levels using a combination of gene-based search.
A database dedicated to nucleotide sequences of bacterial, archaeal and eukaryotic (cytoplasmic and organellar) 5S ribosomal RNAs and their genes. The sequences for particular organisms can be retrieved as single files using a taxonomic browser or in multiple sequence structural alignments. All data that have been used to create the database can be downloaded from the web page and from interactive windows, and can be used in subsequent data-mining applications.
Provides up to date, quality-controlled databases of aligned ribosomal RNA (rRNA) gene sequences from the Bacteria, Archaea and Eukaryota domains and supplementary online services. silva contains 3 194 778 small subunit and 288 717 large subunit rRNA gene sequences. Its Browser implements a hierarchical view on the database contents, similar to a file browser, visualizing any of the taxonomies included with SILVA.
Gathers annotated, chimera-checked, full-length 16S rRNA gene sequences in standard alignment formats. Greengenes distributes relationships of taxonomies from multiple curators and multiple sequences from a single study. It can serve to assess the validity of prokaryotic candidate phyla. This database was constructed with more than 90 000 public 16S small-subunit rRNA gene sequences aligned and chimera checked.
Explores, evaluates and monitors the diversity of photosynthetic eukaryotes in aquatic and terrestrial ecosystems. PhytoREF is a database built through the compilation of all of the publicly available plastidial 16S rDNA sequences (amplicons and sequences extracted from plastidial genomes), as well as novel Sanger amplicons. This database could also facilitate the development of a range of applications in biomonitoring photosynthetic eukaryotes in various habitats, palaeoecological studies of primary producers in past environments and dietary studies in unicellular and multicellular herbivores.
Gathers information about Cryo-electron microscopy (cryo-EM) density maps and atomic coordinates of ribosomal particles from Protein Data Bank (PDBs) and Electron Microscopy Data Bank (EMDB). Users can make searches by EMDB or PDB accession number (ID) or use the drop-down menu to restrict the search to Source Database or ID, title, author, abstract or PubMed ID, as well as method, organism, ligand, classification or particle type