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    sbcB exodeoxyribonuclease I [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946529, updated on 3-Dec-2024

    Summary

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    Official Symbol
    sbcB
    Official Full Name
    exodeoxyribonuclease I
    Primary source
    ECOCYC:EG10926
    Locus tag
    b2011
    See related
    ASAP:ABE-0006686
    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
    cpeA; ECK2005; exoI; rmuA; xonA
    Summary
    The C-terminus of Ssb binds and stimulates Exonuclease I activity (Lu, 2008). [More information is available at EcoGene: EG10926]. Exonuclease I (ExoI) hydrolyzes DNA through its 3'-5' exonuclease acitivity. [More information is available at EcoCyc: EG10926].
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    Genomic context

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    Sequence:
    NC_000913.3 (2082756..2084183)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene DNA gyrase inhibitor Neighboring gene D-alanyl-D-alanine carboxypeptidase DacD Neighboring gene putative thiosulfate sulfurtransferase Neighboring gene thiosulfate transporter

    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. Mechanism of sbcB-suppression of the recBC-deficiency in postreplication repair in UV-irradiated Escherichia coli K-12. Wang TC, et al. Mol Gen Genet, 1985. PMID 3911022
    2. Structure of Escherichia coli exonuclease I suggests how processivity is achieved. Breyer WA, et al. Nat Struct Biol, 2000 Dec. PMID 11101894
    3. THE DEOXYRIBONUCLEASES OF ESCHERICHIA COLI. V. ON THE SPECIFICITY OF EXONUCLEASE I (PHOSPHODIESTERASE). LEHMAN IR, et al. J Biol Chem, 1964 Aug. PMID 14235546
    4. Control of genetic stability in Escherichia coli: the SbcB 3'-5' exonuclease suppresses illegitimate recombination promoted by the RecE 5'-3' exonuclease. Yamaguchi H, et al. Genes Cells, 2000 Feb. PMID 10672041
    5. A new phenotype for sbcB mutations in Escherichia coli: RecA-dependent increase in plasmid-borne gene expression. Jayashree P, et al. Mol Gen Genet, 1995 Mar 10. PMID 7700238

    See all (56) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data show that replication forks form a palindrome-like structural intermediate that requires nucleolytic processing by SbcC-SbcD and exonuclease I (ExoI) before chromosome replication can be completed.
      Title: SbcC-SbcD and ExoI process convergent forks to complete chromosome replication.
    2. ExoI is primarily responsible for more efficiently abort template-switches on the lagging strand and that its ability to be recruited by single-strand DNA binding protein plays a critical role in quasipalindrome-associated mutagenesis avoidance and strand bias.
      Title: SSB recruitment of Exonuclease I aborts template-switching in Escherichia coli.
    3. Possible mechanisms for ExoI processive digestion are proposed based upon crystal structures of ExoI in complex with four different single-stranded DNA substrates.
      Title: Crystal structures of Escherichia coli exonuclease I in complex with single-stranded DNA provide insights into the mechanism of processive digestion.
    4. Study hypothesized that RecJ and XonA blunt the double-strand end (created by the replication fork reversal)in order to produce SOS(Con) expression.
      Title: RecA4142 causes SOS constitutive expression by loading onto reversed replication forks in Escherichia coli K-12.
    5. The absence of SbcC and SbcD in sbcB15 cells decreased stationary-phase mutation.
      Title: Role of single-strand DNA 3'-5' exonuclease ExoI and nuclease SbcCD in stationary-phase mutation in Escherichia coli K-12.
    6. Data show structure of ExoI in complex with thymidine 5'-monophosphate, indicating that conserved active site contains a unique metal-binding position when compared with orthologous sites in the Klenow fragment, T4 DNA polymerase and dnaQ.
      Title: Structure of Escherichia coli exonuclease I in complex with thymidine 5'-monophosphate.
    7. N-terminus verified by Edman degradation on complete protein
      Title: Determination of the nucleotide sequence for the exonuclease I structural gene (sbcB) of Escherichia coli K12.
    8. Our results suggest that two types of sbcB-sensitive RecF pathways can be distinguished in E. coli, one that is activated by the sbcB15 mutation and one that is activated by sbcB null mutations.
      Title: sbcB15 And DeltasbcB mutations activate two types of recf recombination pathways in Escherichia coli.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables 3'-5'-RNA exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 5'-deoxyribose-5-phosphate lyase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables magnesium ion binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables single-stranded DNA 3'-5' DNA exonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables single-stranded DNA 3'-5' DNA exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA replication termination EXP
    Inferred from Experiment
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    exodeoxyribonuclease I
    NP_416515.1

    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
      2082756..2084183
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_416515.1 exodeoxyribonuclease I [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_416515.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A376K4S3, Q2A0L0
      Conserved Domains (1) summary
      PRK11779
      Location:4 → 475
      sbcB; exonuclease I; Provisional
    Nucleotide Protein
    Heading Accession and Version

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