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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_redundancy">more...</a>)</p> 976
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>UP000002587
Taxonomy413404 - Ruthia magnifica subsp. Calyptogena magnifica
Last modifiedSeptember 23, 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_000015105.1 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 Ruthia magnifica subsp. Calyptogena magnifica pan proteome (fasta)

Intracellular, sulfur-oxiding endosymbiont of Calyptogena magnifica, a giant clam living in deep sea hydrothermal vents. Ruthia magnifica is predicted to encode all the metabolic pathways typical of free-living chemoautotrophs, including carbon fixation, via the Calvin.Benson-Bassham pathway using energy derived from sulfur oxidation, nitrogen assimilation (nitrate and ammonia), and biosynthetic pathways for 20 amino acid and 10 cofactors/vitamins. The clam depends on this gammaproteobacteria for its nutrition. Few substrate-specific transporters were found, suggesting that the symbionts are leaky or that the host actively digests symbiont cells; putative degradative stages of symbionts are observed within C. magnifica bacteriocytes. The symbiont is also lacking the key cell division protein FtsZ suggesting that, like Chlamydia spp., intracellular division may not proceed through usual pathways. It is lacking one of the enzymes required for full cell wall biosynthesis. R. magnifica has the largest genome of any intracellular symbiont sequenced to date and may represent an early intermediate in the evolution toward a plastid-like chemoautotrophic organelle. An additional paper further describing the bacteria has been published (PMID 21304746) (adapted from PMID 17303757).

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

Component nameGenome Accession(s)
Proteins
Chromosome976
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