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Proteomes - Delftia acidovorans (strain DSM 14801 / SPH-1)

Overview

StatusReference proteome
Proteinsi <p>Number of protein entries associated with this proteome: UniProtKB entries for regular proteomes or UniParc entries for redundant proteomes (<a href="/help/proteome%5Fredundancy">more...</a>)</p> 5,968
Gene counti <p>This is the total number of unique genes found in the proteome set, algorithmically computed. For each gene, a single representative protein sequence is chosen from the proteome. Where possible, reviewed (Swiss-Prot) protein sequences are chosen as the representatives.</p> - Download one protein sequence per gene (FASTA)
Proteome IDi <p>The proteome identifier (UPID) is the unique identifier assigned to the set of proteins that constitute the <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a>. It consists of the characters 'UP' followed by 9 digits, is stable across releases and can therefore be used to cite a UniProt proteome.<p><a href='/help/proteome_id' target='_top'>More...</a></p>UP000000784
Taxonomy398578 - Delftia acidovorans (strain DSM 14801 / SPH-1)
StrainDSM 14801 / SPH-1
Last modifiedAugust 19, 2020
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000018665.1 from ENA/EMBL full
Pan proteomei <p>A pan proteome is the full set of proteins thought to be expressed by a group of highly related organisms (e.g. multiple strains of the same bacterial species).<p><a href='/help/pan_proteomes' target='_top'>More...</a></p> This proteome is part of the Delftia acidovorans (strain DSM 14801 / SPH-1) pan proteome (fasta)
Buscoi <p>The Benchmarking Universal Single-Copy Ortholog (BUSCO) assessment tool is used, for eukaryotic and bacterial proteomes, to provide quantitative measures of UniProt proteome data completeness in terms of expected gene content. BUSCO scores include percentages of complete (C) single-copy (S) genes, complete (C) duplicated (D) genes, fragmented (F) and missing (F) genes, as well as the total number of orthologous clusters (n) used in the BUSCO assessment.</p> C:99.4%[S:99.4%,D:0%],F:0%,M:0.6%,n:688 burkholderiales_odb10
Completenessi <p>Complete Proteome Detector (CPD) is an algorithm which employs statistical evaluation of the completeness and quality of proteomes in UniProt, by looking at the sizes of taxonomically close proteomes. Possible values are 'Standard', 'Close to Standard' and 'Outlier'.</p> Standard

Delftia acidovorans (strain DSM 14801 / SPH-1) is a non-halophilic aerobic Gram-negative bacterium isolated from soil enriched with acetamide in Delft (Netherlands). This organism is found in soil, sediment, activated sludge, crude oil, water, and various clinical samples. It has been shown to degrade a number of organic compounds such as 2-(4-sulfophenyl)butyrate (SPB) and may be useful degradation of linear alkylbenzenesulfonate (LAS) surfactant in wastewater treatment.

Componentsi <p>Genomic components encoding the proteome</p>

Component nameGenome Accession(s)
Component representationProteins
Chromosome
CP000884
5968

Publications

  1. "Mineralization of individual congeners of linear alkylbenzenesulfonate by defined pairs of heterotrophic bacteria."
    Schleheck D., Knepper T.P., Fischer K., Cook A.M.
    Appl. Environ. Microbiol. 70:4053-4063(2004) [PubMed] [Europe PMC] [Abstract]
  2. "Complete sequence of Delftia acidovorans DSM 14801 / SPH-1."
    Copeland A., Lucas S., Lapidus A., Barry K., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Lowry S., Clum A., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Kim E., Schleheck D., Richardson P.
    Submitted (NOV-2007) to the EMBL/GenBank/DDBJ databases
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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