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deaD ATP-dependent RNA helicase for 23S ribosomal RNA maturation [ Bacillus subtilis subsp. subtilis str. 168 ]

Gene ID: 937492, updated on 6-Oct-2023
Gene symbol
deaD
Gene description
ATP-dependent RNA helicase for 23S ribosomal RNA maturation
Locus tag
BSU_39110
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Bacillus subtilis subsp. subtilis str. 168 (strain: 168, sub-species: subtilis, type-material: type strain of Bacillus subtilis)
Lineage
Bacteria; Firmicutes; Bacilli; Bacillales; Bacillaceae; Bacillus
Old locus tag
BSU39110
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Sequence:
NC_000964.3 (4015987..4017426, complement)

NC_000964.3Genomic Context describing neighboring genes Neighboring gene putative lipoprotein Neighboring gene putative efflux transporter Neighboring gene esterase (lipoprotein) Neighboring gene pseudo

Genomic Sequence:
NC_000964.3

Go to nucleotide: Graphics FASTA GenBank

Related articles in PubMed

  1. The DEAD box helicase YxiN maintains a closed conformation during ATP hydrolysis. Aregger R, et al. Biochemistry, 2009 Nov 17. PMID 19839642
  2. Cooperative binding of ATP and RNA induces a closed conformation in a DEAD box RNA helicase. Theissen B, et al. Proc Natl Acad Sci U S A, 2008 Jan 15. PMID 18184816, Free PMC Article
  3. Authentic interdomain communication in an RNA helicase reconstituted by expressed protein ligation of two helicase domains. Karow AR, et al. FEBS J, 2007 Jan. PMID 17229151
  4. YxiN is a modular protein combining a DEx(D/H) core and a specific RNA-binding domain. Karginov FV, et al. J Biol Chem, 2005 Oct 21. PMID 16118224
  5. A structural model for the DEAD box helicase YxiN in solution: localization of the RNA binding domain. Karow AR, et al. J Mol Biol, 2010 Oct 1. PMID 20691700

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. present a model for the global conformation of YxiN in which the RBD lies above a slightly concave patch that is formed by flexible loops on the surface of the C-terminal RecA domain
    Title: A structural model for the DEAD box helicase YxiN in solution: localization of the RNA binding domain.
  2. results show that the interdomain cleft in the helicase core closes upon ATP binding at the beginning of the cycle. Reopening occurs after ATP hydrolysis, most likely coupled to phosphate release
    Title: The DEAD box helicase YxiN maintains a closed conformation during ATP hydrolysis.
  3. FRET experiments with Bacillus subtilis DEAD box helicase YxiN carrying donor and acceptor fluorophores on different sides of the interdomain cleft reveal an open helicase conformation in the absence of nucleotides, or ADP, or RNA
    Title: Cooperative binding of ATP and RNA induces a closed conformation in a DEAD box RNA helicase.
  4. analysis of the two helicase domains of YxiN
    Title: Authentic interdomain communication in an RNA helicase reconstituted by expressed protein ligation of two helicase domains.
  5. The domain of the Bacillus subtilis DEAD-box helicase YxiN that is responsible for specific binding of 23S rRNA has an RNA recognition motif fold
    Title: The domain of the Bacillus subtilis DEAD-box helicase YxiN that is responsible for specific binding of 23S rRNA has an RNA recognition motif fold.
  6. YxiN has a DEx(D/H) core and a specific RNA-binding domain
    Title: YxiN is a modular protein combining a DEx(D/H) core and a specific RNA-binding domain.
  7. The structure of the second domain, amino-acid residues 207-368, has been solved to 1.95 A resolution, revealing a parallel alpha(beta)-fold.
    Title: Structure of the second domain of the Bacillus subtilis DEAD-box RNA helicase YxiN.
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Homology

Preferred Names
ATP-dependent RNA helicase for 23S ribosomal RNA maturation
NP_391790.2
  • Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10481020, 16118224, 16611943, 17142894, 17229151, 17951299, 19839642, 20691700, 26755693; Product type e: enzyme

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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_000964.3 Reference assembly

    Range
    4015987..4017426 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_391790.2 ATP-dependent RNA helicase for 23S ribosomal RNA maturation [Bacillus subtilis subsp. subtilis str. 168]

    See identical proteins and their annotated locations for NP_391790.2

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A0D1JBZ9
    Conserved Domains (2) summary
    COG0513
    Location:1 → 443
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cl17169
    Location:411 → 477
    RRM_SF; RNA recognition motif (RRM) superfamily
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P42305.2

Gene LinkOut

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Other Literature Sources
Molecular Biology Databases
Research Materials