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pdeB 2'3' and 3'5' cyclic nucleotide monophosphates phosphodiesterase involved in biofilm formation [ Bacillus subtilis subsp. subtilis str. 168 ]

Gene ID: 939441, updated on 6-Oct-2023
Gene symbol
pdeB
Gene description
2'3' and 3'5' cyclic nucleotide monophosphates phosphodiesterase involved in biofilm formation
Locus tag
BSU_16970
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
BSU16970
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Sequence:
NC_000964.3 (1768941..1769735)

NC_000964.3Genomic Context describing neighboring genes Neighboring gene penicillin-binding endopeptidase X (lysozyme resistance) Neighboring gene endoribonuclease Y Neighboring gene regulator required for dehydratation of the spore core and assembly of the coat (stage V sporulation) Neighboring gene threonine 3-dehydrogenase

Genomic Sequence:
NC_000964.3

Go to nucleotide: Graphics FASTA GenBank

Related articles in PubMed

  1. Interspecies nutrient extraction and toxin delivery between bacteria. Stempler O, et al. Nat Commun, 2017 Aug 22. PMID 28827522, Free PMC Article
  2. The YmdB phosphodiesterase is a global regulator of late adaptive responses in Bacillus subtilis. Diethmaier C, et al. J Bacteriol, 2014 Jan. PMID 24163345, Free PMC Article
  3. A novel factor controlling bistability in Bacillus subtilis: the YmdB protein affects flagellin expression and biofilm formation. Diethmaier C, et al. J Bacteriol, 2011 Nov. PMID 21856853, Free PMC Article
  4. Bacillus subtilis, the model Gram-positive bacterium: 20 years of annotation refinement. Borriss R, et al. Microb Biotechnol, 2018 Jan. PMID 29280348, Free PMC Article
  5. An updated metabolic view of the Bacillus subtilis 168 genome. Belda E, et al. Microbiology (Reading), 2013 Apr. PMID 23429746

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Bacillus subtilis rapidly inhibits Bacillus megaterium growth by delivering the tRNase toxin WapA and the inhibition is YmdB-mediated.
    Title: Interspecies nutrient extraction and toxin delivery between bacteria.
  2. Authors find that YmdB is a phosphodiesterase with activity against 2',3'- and 3',5'-cyclic nucleotide monophosphates.
    Title: The YmdB phosphodiesterase is a global regulator of late adaptive responses in Bacillus subtilis.
  3. T he ymdB mutant is unable to form biofilms.
    Title: A novel factor controlling bistability in Bacillus subtilis: the YmdB protein affects flagellin expression and biofilm formation.
Submit: New GeneRIF Correction

Homology

Preferred Names
2'3' and 3'5' cyclic nucleotide monophosphates phosphodiesterase involved in biofilm formation
NP_389579.2
  • Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19376879, 21856853, 24163345, 26904951, 26906740; 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
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_389579.2 2'3' and 3'5' cyclic nucleotide monophosphates phosphodiesterase involved in biofilm formation [Bacillus subtilis subsp. subtilis str. 168]

    See identical proteins and their annotated locations for NP_389579.2

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A0D1JJJ3
    Conserved Domains (1) summary
    pfam13277
    Location:4 → 254
    YmdB; YmdB-like protein
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O31775.2

Gene LinkOut

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Other Literature Sources
Molecular Biology Databases