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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> 4,500
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>UP000002084
Taxonomy41514 - Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980)
StrainATCC BAA-731 / CDC346-86 / RSK2980
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_000018625.1 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 Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) 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:98%[S:97.7%,D:0.2%],F:0%,M:2%,n:440 enterobacterales_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

Salmonella is a Gram-negative bacterium, a cylindrical rod of size about 2 microns by 0.5 microns. Most bacteria in the species S. enterica belong to one of seven subspecies; all but subspecies I normally grow only in cold-blooded animals. This species, subspecies IIIa (S. arizonae) is naturally found in reptiles, but also causes outbreaks of salmonellosis in turkeys and sheep and can occasionally produce both gastroenteritis and serious disseminated disease in humans (typically less than 10 cases/year in the USA). Many human infections can be traced to contact with reptiles or ingestion of various reptile products, particularly from rattlesnakes. It makes only one type of flagellum.

The strain of S. arizonae (62:z4,z23:-) being sequenced is CDC346-86; it was named RSK2980 by R.K. Selander and is strain SARC5 of the Salmonella Reference C set. It appears to be the most divergent subspecies among the S. enterica. It can be obtained from the Salmonella Genetic Stock Centre as SGSC4693 (modified from genome.wustl.edu/genome.cgi?GENOME=Salmonella%20enterica%20subspecies%20IIIa%20(Arizonae)%20serovar%2062:z4,z23:--).

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome4500
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Main funding by: National Institutes of Health

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