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Proteomes - Accumulibacter phosphatis (strain UW-1)

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> 4,438
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>UP000001619
Taxonomy522306 - Accumulibacter phosphatis (strain UW-1)
StrainUW-1
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000024165.1 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:98.8%[S:97.5%,D:1.2%],F:0.5%,M:0.7%,n:569 betaproteobacteria_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)

Accumulibacter phosphatis (strain UW-1) is an aerobic, polyphosphate-accumulating, Gram-negative bacterium isolated from enhanced biological phosphorus removal (EBPR) wastewater treatment systems. Removal of phosphorus from wastewater is important to avoid eutrophication (excess nutrients) in surface waters. (Adapted from: www.ncbi.nlm.nih.gov/sites/genomeprj?Db=genomeprj&cmd=ShowDetailView&TermToSearch=36901).

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome
CP001715
4228
Plasmid pAph01
CP001716
154
Plasmid pAph02
CP001717
39
Plasmid pAph03
CP001718
39

Publications

  1. "Complete sequence of plasmid1 of Candidatus Accumulibacter phosphatis clade IIA str. UW-1."
    US DOE Joint Genome Institute
    Martin H.G., Ivanova N., Kunin V., Warnecke F., Barry K., He S., Salamov A., Szeto E., Dalin E., Pangilinan J.L., Lapidus A., Lowry S., Kyrpides N.C., McMahon K.D., Hugenholtz P.
    Submitted (SEP-2009) to the EMBL/GenBank/DDBJ databases
  2. "Complete sequence of plasmid2 of Candidatus Accumulibacter phosphatis clade IIA str. UW-1."
    US DOE Joint Genome Institute
    Martin H.G., Ivanova N., Kunin V., Warnecke F., Barry K., He S., Salamov A., Szeto E., Dalin E., Pangilinan J.L., Lapidus A., Lowry S., Kyrpides N.C., McMahon K.D., Hugenholtz P.
    Submitted (SEP-2009) to the EMBL/GenBank/DDBJ databases
  3. "Complete sequence of plasmid3 of Candidatus Accumulibacter phosphatis clade IIA str. UW-1."
    US DOE Joint Genome Institute
    Martin H.G., Ivanova N., Kunin V., Warnecke F., Barry K., He S., Salamov A., Szeto E., Dalin E., Pangilinan J.L., Lapidus A., Lowry S., Kyrpides N.C., McMahon K.D., Hugenholtz P.
    Submitted (SEP-2009) to the EMBL/GenBank/DDBJ databases
  4. "Complete sequence of chromosome of Candidatus Accumulibacter phosphatis clade IIA str. UW-1."
    US DOE Joint Genome Institute
    Martin H.G., Ivanova N., Kunin V., Warnecke F., Barry K., He S., Salamov A., Szeto E., Dalin E., Pangilinan J.L., Lapidus A., Lowry S., Kyrpides N.C., McMahon K.D., Hugenholtz P.
    Submitted (SEP-2009) to the EMBL/GenBank/DDBJ databases
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Main funding by: National Institutes of Health

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