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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> 2,171
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>UP000006650
Taxonomy521097 - Capnocytophaga ochracea (strain ATCC 27872 / DSM 7271 / JCM 12966 / NCTC 12371 / VPI 2845)
StrainATCC 27872 / DSM 7271 / JCM 12966 / VPI 2845
Last modifiedDecember 21, 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_000023285.1 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 Capnocytophaga ochracea (strain ATCC 27872 / DSM 7271 / JCM 12966 / NCTC 12371 / VPI 2845) (Bacteroides ochraceus) 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:93.6%[S:93.2%,D:0.4%],F:0.7%,M:5.7%,n:733 flavobacteriales_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> Close to standard (low)

Capnocytophaga ochracea (strain ATCC 27872 / DSM 7271 / JCM 12966 / VPI 2845) is a capnophilic (CO2-requiring), gliding Gram-negative bacterium, originally isolated from the human oral cavity. Cells are pigmented and the name "ochracea" is derived from the yellow color exhibited by harvested cell mass. C.ochracea grows as fusiform to rod shaped cells which tend to form clumps and are able to move by gliding. It is known as a capnophilic organism with the ability to grow under anaerobic as well as aerobic conditions (oxygen concentration larger than 15%) C. ochracea is most often found in association with animal and human hosts. In general, it is a normal inhabitant of the human mouth and other non-oral sites. C. ochracea is associated with juvenile and adult periodontitis and can also be an opportunistic pathogens. It may cause severe infections in immunocompromised as well as in immunocompetent patients. Among these are endocarditis, endometritis, osteomyelitis, abscesses, peritonitis, and keratitis. C. ochracea is usually susceptible to a number of antibiotics, however, resistance is increasing in this species. Furthermore, C. ochracea is known to possess an immunosuppressive factor. All strains of C. ochracea are capable of fermenting glucose, sucrose, maltose and mannose, whereas most strains ferment amygdalin, fructose, galactose, lactose and raffinose. The optimal growth temperature is 37 degrees Celsius. Nitrate is reduced to nitrite, and dextran, glycogen, starch and aesculin are hydrolysed by most strains. Indole is not produced. Acetic and succinic acid are the main metabolic end products of fermentation. (Adapted from PMID 21304645).

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome2171
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Main funding by: National Institutes of Health

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