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    rd rubredoxin [ Pyrococcus furiosus DSM 3638 ]

    Gene ID: 1469155, updated on 22-Oct-2024

    Summary

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    Gene symbol
    rd
    Gene description
    rubredoxin
    Locus tag
    PF_RS06415
    Gene type
    protein coding
    Organism
    Pyrococcus furiosus DSM 3638 (strain: DSM 3638, type-material: type strain of Pyrococcus furiosus)
    Lineage
    Archaea; Methanobacteriati; Methanobacteriota; Thermococci; Thermococcales; Thermococcaceae; Pyrococcus
    Old locus tag
    PF1282
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    Genomic context

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    Sequence:
    NC_003413.1 (1210573..1210737, complement)

    NC_003413.1Genomic Context describing neighboring genes Neighboring gene hypothetical protein Neighboring gene superoxide reductase SorA Neighboring gene rubrerythrin family protein Neighboring gene hypothetical protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003413.1

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The key to the extraordinary thermal stability of P. furiosus holo-rubredoxin: iron binding-guided packing of a core aromatic cluster responsible for high kinetic stability of the native structure. Prakash S, et al. PLoS One, 2014. PMID 24603898, Free PMC Article
    2. Hyperthermophile protein behavior: partially-structured conformations of Pyrococcus furiosus rubredoxin monomers generated through forced cold-denaturation and refolding. Chandrayan SK, et al. PLoS One, 2014. PMID 24603413, Free PMC Article
    3. The IMAGINE instrument: first neutron protein structure and new capabilities for neutron macromolecular crystallography. Meilleur F, et al. Acta Crystallogr D Biol Crystallogr, 2013 Oct. PMID 24100333
    4. A billion-fold range in acidity for the solvent-exposed amides of Pyrococcus furiosus rubredoxin. Anderson JS, et al. Biochemistry, 2008 Jun 10. PMID 18479148
    5. Effects of environment on the structure of Pyrococcus furiosus rubredoxin: a molecular dynamics study. Ergenekan CE, et al. Proteins, 2005 Dec 1. PMID 16245319

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data indicate that differential cold-denaturation treatments allow rubredoxin (PfRd) to access multiple partially-unfolded states.
      Title: Hyperthermophile protein behavior: partially-structured conformations of Pyrococcus furiosus rubredoxin monomers generated through forced cold-denaturation and refolding.
    2. Data indicate that the extraordinary thermal stability of holo-rubredoxin (PfRd) was caused by iron binding-guided packing of a core aromatic cluster.
      Title: The key to the extraordinary thermal stability of P. furiosus holo-rubredoxin: iron binding-guided packing of a core aromatic cluster responsible for high kinetic stability of the native structure.
    3. The first high-resolution neutron protein structure of perdeuterated rubredoxin from Pyrococcus furiosus has been determined using the new IMAGINE macromolecular neutron crystallography instrument at the Oak Ridge National Laboratory.
      Title: The IMAGINE instrument: first neutron protein structure and new capabilities for neutron macromolecular crystallography.
    4. electrostatic calculations are analyzed to characterize structural elements that appear to be responsible for the range of peptide acidities observed for solvent-exposed amides.
      Title: A billion-fold range in acidity for the solvent-exposed amides of Pyrococcus furiosus rubredoxin.
    5. Temperature has a greater impact on the protein structure than the close molecular contacts of the crystal matrix in rubredoxin.
      Title: Effects of environment on the structure of Pyrococcus furiosus rubredoxin: a molecular dynamics study.
    Submit: New GeneRIF Correction

    General protein information

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    Preferred Names
    rubredoxin

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003413.1 Reference assembly

      Range
      1210573..1210737 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. WP_011012426.1 rubredoxin [Pyrococcus furiosus]

      See identical proteins and their annotated locations for WP_011012426.1

      UniProtKB/Swiss-Prot
      P24297, Q9UWP6
      UniProtKB/TrEMBL
      A0A5C0XPK3, I6UQC8
      Conserved Domains (1) summary
      cd00730
      Location:3 → 52
      rubredoxin; Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are ...
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P24297.2

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