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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> 4,467
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>UP000001572
Taxonomy293826 - Alkaliphilus metalliredigens (strain QYMF)
StrainQYMF
Last modifiedMay 24, 2021
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000016985.1 from ENA/EMBL full
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:100%[S:98.9%,D:1.1%],F:0%,M:0%,n:264 clostridiales_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)

Alkaliphilus metalliredigens (strain QYMF) is s an alkaliphilic, moderately halophilic metal-reducing bacterium phylogenetically associated with the Firmicutes. A. metalliredigens was isolated from borax leachate ponds. Alkaliphilus metalliredigens can reduce Fe(III)-citrate, Fe(III)-EDTA, Co(III)-EDTA, or Cr(VI) as electron acceptors with yeast extract or lactate as electron donors. Growth during iron reduction occurs over the pH range of 7.5 to 11.0, a sodium chloride range of 0 to 80 g/l and a temperature range of 4 degrees Celsius to 45 degrees Celsius. Optimal growth conditions during iron reduction in the presence of borate (2 g/l) were observed at a pH of 9.6, a sodium chloride concentration of 20 g/l and a temperature of approximately 35 degrees Celsius. A. metalliredigens is a strict anaerobe that can tolerate up to 1.5% (w/v) borax (Na2B4O7), and the cells are straight rods that produce endospores. The microorganism appears to be a novel metal-reducing bacterium that is distantly related to other commonly studied iron-reducing microorganisms. At the present time (December 2007), the most closely related microorganisms are Alkaliphilus transvaalensis and Alkaliphilus crotonatoxidans.

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome4467

Publications

  1. "Complete genome sequence of Alkaliphilus metalliredigens strain QYMF, an alkaliphilic and metal-reducing bacterium isolated from borax-contaminated leachate ponds."
    Hwang C., Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina Del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Chertkov O., Brettin T., Bruce D., Han C., Schmutz J., Larimer F.
    Fields M.W.
    Genome Announc. 4:0-0(2016) [PubMed] [Europe PMC] [Abstract]
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