Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.


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> 4,336
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="">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>UP000002350
Taxonomy637905 - Shewanella violacea (strain JCM 10179 / CIP 106290 / LMG 19151 / DSS12)
StrainJCM 10179 / CIP 106290 / LMG 19151 / DSS12
Last modifiedAugust 19, 2020
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="">more...</a>)</p> GCA_000091325.1 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 Shewanella violacea (strain JCM 10179 / CIP 106290 / LMG 19151 / DSS12) 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:99.1%,D:0.2%],F:0.1%,M:0.5%,n:820 alteromonadales_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

Shewanella are facultatively anaerobic, Gram-negative bacteria, motile by polar flagella, rod-like, and generally associated with aquatic or marine environments. They are capable of using a variety of compounds as electron acceptors, including oxygen, iron, manganese, uranium, nitrate, nitrite, fumarate, to name but a few. This ability makes Shewanella important for bioremediation of contaminated metals and radioactive wastes. The genus Shewanella comprises 36 recognized and hundreds of uncharacterized cultivable species.

S.violacea strain DSS12 is a psychrophilic and piezophilic bacterium isolated from the surface layer of sediments in the Ryuku Trench at a depth of 5110m. As befits its habitat, it grows optimally at 8 degrees Celsius and at 30 MPa. The genome of S.violacea when compared to S.oneidensis reflects adaptations to the environment in the surface layer of deep-sea sediments. It can secrete a wide variety of enzymes which enables it to decompose a wide variety of organic compounds, suggesting that it contributes substantially to remineralization of organic matter in deep-sea sediments. S.violacea strongly depends on oxygen as a terminal electron acceptor, indicating that a steady supply of oxygen to the deep-sea floor through the global thermohaline circulation (when cold salty water sinks from the surface near the poles and flows at depth to all the ocean basins) is very important for maintaining adequate remineralization of deep-sea sediments. The finding that S. violacea is likely to utilize nitrate as a nitrogen source suggests that the contribution of deep-sea sediment bacteria to nitrate assimilation processes in the oceanic nitrogen cycle may need to be considered. The genome analysis has also revealed the involvement of phosphatidylethanolamine and cadiolipin in adaptation to the cold, deep-sea environment (adapted from PMID 20458400).

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

Component nameGenome Accession(s)
Component representationProteins


  1. "Complete genome sequence and comparative analysis of Shewanella violacea, a psychrophilic and piezophilic bacterium from deep sea floor sediments."
    Aono E., Baba T., Ara T., Nishi T., Nakamichi T., Inamoto E., Toyonaga H., Hasegawa M., Takai Y., Okumura Y., Baba M., Tomita M., Kato C., Oshima T., Nakasone K., Mori H.
    Mol. Biosyst. 6:1216-1226(2010) [PubMed] [Europe PMC] [Abstract]
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

We'd like to inform you that we have updated our Privacy Notice to comply with Europe’s new General Data Protection Regulation (GDPR) that applies since 25 May 2018.

Do not show this banner again