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Overview

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> 5,499
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>UP000000232
Taxonomy350054 - Mycolicibacterium gilvum (strain PYR-GCK)
StrainPYR-GCK
Last modifiedNovember 5, 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_000016365.1 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 Mycolicibacterium vanbaalenii (strain DSM 7251 / JCM 13017 / NRRL B-24157 / PYR-1) (Mycobacterium vanbaalenii) pan proteome (fasta)
BuscoC:99.1%[S:98.9%,D:0.3%],F:0.6%,M:0.3%,n:352
CompletenessStandard

Mycobacterium gilvum PYR-GCK (ATCC 700033), formerly M. flavescens, was isolated from river sediment based on its ability to degrade polycyclic aromatic hydrocarbons (PAH) such as the four-benzene-ring aromatic hydrocarbon, pyrene, as a sole source of carbon and energy. It also degrades phenanthrene but not benzo(a)pyrene. It is resistant to ampicillin but not to other antibiotics tested, including isoniazid. It is able to form biofilm (adapted from PubMed 17578427).

Mycobacteria have an unusual outer membrane approximately 8nm thick, despite being considered Gram-positive. The outer membrane and the mycolic acid-arabinoglactan-peptidoglycan polymer form the cell wall, which constitutes an efficient permeability barrier in conjunction with the cell inner membrane.

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome5166
Plasmid pMFLV01293
Plasmid pMFLV0224
Plasmid pMFLV0316

Publications

  1. "Complete sequence of plasmid 2 pMFLV02 of Mycobacterium gilvum PYR-GCK."
    US DOE Joint Genome Institute
    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., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M.
    Richardson P.
    Submitted (APR-2007) to the EMBL/GenBank/DDBJ databases
  2. "Complete sequence of plasmid 3 pMFLV03 of Mycobacterium gilvum PYR-GCK."
    US DOE Joint Genome Institute
    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., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M.
    Richardson P.
    Submitted (APR-2007) to the EMBL/GenBank/DDBJ databases
  3. "Complete sequence of plasmid 1 pMFLV01 of Mycobacterium gilvum PYR-GCK."
    US DOE Joint Genome Institute
    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., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M.
    Richardson P.
    Submitted (APR-2007) to the EMBL/GenBank/DDBJ databases
  4. "A Gene Expression Study of the Activities of Aromatic Ring-Cleavage Dioxygenases in Mycobacterium gilvum PYR-GCK to Changes in Salinity and pH during Pyrene Degradation."
    Badejo A.C., Badejo A.O., Shin K.H., Chai Y.G.
    PLoS One 8:E58066-E58066(2013) [PubMed] [Europe PMC] [Abstract]
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