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Overview

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_redundancy">more...</a>)</p> 6,424
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_manual">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>UP000002204
Taxonomy234621 - Rhodococcus erythropolis (strain PR4 / NBRC 100887)
StrainPR4 / NBRC 100887
Last modifiedSeptember 30, 2019
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000010105.1 from ENA/EMBL
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 Rhodococcus sp. AD45 pan proteome (fasta)

Rhodococci are aerobic, Gram positive actinomycetes of high G+C content, capable of morphological differentiation in response to their environment (e.g., cocci or filaments). These widely occurring organisms are of considerable environmental and biotechnological importance due to their broad metabolic diversity and array of unique enzymatic capabilities. These are of interest to the pharmaceutical, environmental, chemical and energy sectors. Specific applications include the desulphurization of fossil fuels and the industrial production of acrylamide. Rhodococci are well suited for bioremediation due to their capacity for long term survival in soil, their exceptional ability to degrade hydrophobic pollutants even in the presence of more readily assimilable carbon sources, and their ability to accumulate high levels of heavy metals.

Rhodococcus erythropolis PR4 (NBRC 100887) was isolated from the Pacific Ocean, south of Okinawa Island, Japan, at a depth of 1,000 m. This strain can degrade various alkanes (C8-C20 n-alkanes, branched alkanes including pristane) and methylbenzenes (such as toluene), but not benzene or naphthalene, as sources of carbon and energy. It produces a large quantity of extracellular polysaccarides (EPSs), which are assumed to play an important role in the tolerance to a variety of organic solvents. The genome consisted of one circular chromosome, one linear plasmid, and two circular plasmids. Genes for the degradation of alkanes were found on the chromosome and plasmids. Genes for the degradation of intermediates of the aromatic hydrocarbon catabolism, such as protocatechuic acid and catechol, were clustered on the chromosome. The genome also contains a number of secondary metabolism genes and EPS biosynthesis genes (modified from www.bio.nite.go.jp/dogan/About?GENOME_ID=rer_G1).

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

Component nameGenome Accession(s)
Proteins
Chromosome6026
Plasmid pREL1295
Plasmid pREC1102
Plasmid pREC23

Publications

  1. "Comparison of the complete genome sequences of Rhodococcus erythropolis PR4 and Rhodococcus opacus B4."
    Takarada H., Sekine M., Hosoyama A., Yamada R., Fujisawa T., Omata S., Shimizu A., Tsukatani N., Tanikawa S., Fujita N., Harayama S.
    Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
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Main funding by: National Institutes of Health

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