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    der 50S ribosomal subunit stability factor [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946983, updated on 3-Dec-2024

    Summary

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    Official Symbol
    der
    Official Full Name
    50S ribosomal subunit stability factor
    Primary source
    ECOCYC:G7319
    Locus tag
    b2511
    See related
    ASAP:ABE-0008270
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
    Lineage
    Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
    Also known as
    ECK2507; engA; yfgK
    Summary
    Der-depletion alters ribosome stability and/or biogenesis, as evidenced by polysome profiles (Bharat, 2006). [More information is available at EcoGene: EG14207]. The Der protein is associated with the large subunit of the ribosome and is required for its stability . [More information is available at EcoCyc: G7319].
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    Genomic context

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    Sequence:
    NC_000913.3 (2635884..2637356, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene inosine 5'-monophosphate dehydrogenase Neighboring gene exodeoxyribonuclease VII subunit XseA Neighboring gene zinc ribbon domain-containing protein YfgJ Neighboring gene outer membrane protein assembly factor BamB Neighboring gene ancillary SecYEG translocon subunit

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Structural insights into the function of a unique tandem GTPase EngA in bacterial ribosome assembly. Zhang X, et al. Nucleic Acids Res, 2014 Dec 1. PMID 25389271, Free PMC Article
    2. Phenotypic investigations of the depletion of EngA in Escherichia coli are consistent with a role in ribosome biogenesis. Bharat A, et al. FEMS Microbiol Lett, 2014 Apr. PMID 24822275, Free PMC Article
    3. An essential GTPase, der, containing double GTP-binding domains from Escherichia coli and Thermotoga maritima. Hwang J, et al. J Biol Chem, 2001 Aug 17. PMID 11387344
    4. Expression phenotypes suggest that Der participates in a specific, high affinity interaction with membranes. Lee R, et al. Protein Expr Purif, 2011 Jul. PMID 21354313
    5. Distinct GDP/GTP bound states of the tandem G-domains of EngA regulate ribosome binding. Tomar SK, et al. Nucleic Acids Res, 2009 Apr. PMID 19246542, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. This analysis indicated that Der was present in sucrose gradient fractions containing membrane proteins. The interaction with the membrane fraction was specific for Der, since the related GTPase, Era, did not form the membrane complex.
      Title: Expression phenotypes suggest that Der participates in a specific, high affinity interaction with membranes.
    2. Der interacts with YihI, which activates the GTPase activity of Der.
      Title: A bacterial GAP-like protein, YihI, regulating the GTPase of Der, an essential GTP-binding protein in Escherichia coli.
    3. Data demonstrated that two GTPase domains of Der regulate its association with 50S subunit via the KH-like domain.
      Title: Interaction of an essential Escherichia coli GTPase, Der, with the 50S ribosome via the KH-like domain.
    4. Defective ribosome biogenesis due to mutations in two tandem GTP-binding domains of Der is suppressed by RelA overproduction.
      Title: RelA functionally suppresses the growth defect caused by a mutation in the G domain of the essential Der protein.
    5. Der plays a pivotal role in ribosome biogenesis possibly through interaction with rRNA or rRNA/r-protein complex.
      Title: The tandem GTPase, Der, is essential for the biogenesis of 50S ribosomal subunits in Escherichia coli.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables GTP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables GTPase activating protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables GTPase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables guanosine tetraphosphate binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ribosomal large subunit binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ribosome binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ribosome binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within ribosomal large subunit assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    50S ribosomal subunit stability factor
    NP_417006.2

    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_000913.3 Reference assembly

      Range
      2635884..2637356 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417006.2 50S ribosomal subunit stability factor [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_417006.2

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A5B9APX2
      Conserved Domains (1) summary
      PRK00093
      Location:3 → 462
      PRK00093; GTP-binding protein Der; Reviewed
    Nucleotide Protein
    Heading Accession and Version

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