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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> 3,125
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>UP000000939
Taxonomy572480 - Arcobacter nitrofigilis (strain ATCC 33309 / DSM 7299 / CCUG 15893 / LMG 7604 / NCTC 12251 / CI)
StrainATCC 33309 / DSM 7299 / CCUG 15893 / LMG 7604 / NCTC 12251 / CI
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="">more...</a>)</p> GCA_000092245.1 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 Arcobacter nitrofigilis (strain ATCC 33309 / DSM 7299 / CCUG 15893 / LMG 7604 / NCTC 12251 / CI) (Campylobacter nitrofigilis) 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 (M) genes, as well as the total number of orthologous clusters (n) used in the BUSCO assessment, and the name of the taxonomic lineage dataset used.</p> C:98.1%[S:95.2%,D:2.9%],F:0.3%,M:1.6%,n:628 campylobacterales_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 (high value)

Arcobacter nitrofigilis (strain ATCC 33309 / DSM 7299 / LMG 7604 / NCTC 12251 / CI) is a microaerophilic, symbiotic Gram-negative bacterium isolated from the roots of Spartina alterniflora Loisel (cordgrass) growing in salty marshes on the east coast of Canada. The species epithet nitrofigilis means "nitrogen-fixing" and Arcobacter meaning "bow-shaped rod". A. nitrofigilis is of phylogenetic interest because of its lifestyle as a symbiotic organism in a marine environment in contrast to many other Arcobacter species which are associated with warm-blooded animals and tend to be pathogenic. A. nitrofigilis cells are Gram-negative, bow-shaped or curved rods. Motility is based on a single, polar flagellum and results in rapid corkscrew motion. The habitat of all known A. nitrofigilis isolates is either the roots or the sediment around the roots of S. alterniflora Loisel growing in salt marshes. Although no pathogenic association has been described so far, A. nitrofigilis is among five Arcobacter species that were isolated from food samples such as meat and shell-fish varieties. The optimum growth temperature is 30 degrees Celsius and the temperature range is from 10-37 degrees Celsius. Neither spores nor granules are present but a brown pigment is formed from tryptophan. Growth occurs under microaerophilic conditions with oxygen as terminal electron acceptor, and under anaerobic conditions fumarate or aspartates are necessary. The metabolism of A. nitrofigilis is chemoorganotrophic with organic acids and amino acids used as carbon sources but carbohydrates are neither oxidized nor fermented. All strains of the species are halotolerant and require a minimum of 0.5% NaCl for growth and can tolerate up to 7% NaCl. A. nitrofigilis is susceptible to cephalothin and nalidixic acid but is resistant to vancomycin. (adapted from: PMID 21304714).

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

Component nameGenome Accession(s)
Component representationProteins
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